Gene Neogobius melanostomus (Round Goby) start end strand NEME annotation comments Periophthalmodon schlosseri (giant mudskipper) start end strand comments Periophthalmus magnuspinnatus (bony fishes) start end strand comments Scartelaos histophorus (walking goby) start end strand comments Boleophthalmus pectinirostris (great blue-spotted mudskipper) start end strand comments TLRs TLR1/6 Contig_593 529452 531873 sense NEME_71 JACM01000992.1 5533 7956 antisense KN464040.1 30125 32536 sense JACN01113035.1 20454 22847 antisense KN523412.1 158137 160554 antisense TLR2 Contig_3524 227629 244791 sense NEME_849 KN483856.1 1 10678 sense KN465323.1 7691 16070 antisense KN499042.1 5377 13732 antisense KN523339.1 540035 554135 sense TLR3 Contig_2650 4614637 4619407 sense NEME_515 KN478554.1 30414 34969 sense KN463856.1 1021679 1026557 antisense KN510993.1 48858 52834 sense KN524460.1 1050666 1055090 sense KN462725.1 53229 54487 sense fragment TLR4 no hit similarly to other non-carp teleosts. no hit similarly to other non-carp teleosts. no hit similarly to other non-carp teleosts. no hit similarly to other non-carp teleosts. no hit similarly to other non-carp teleosts. TLR5 Contig_2593 3093555 3102721 antisense NEME_496 KN480162.1 25098 28950 sense KN462181.1 379451 383089 antisense KN507054.1 983 4143 antisense KN521806.1 5378025 5382073 antisense TLR5S (soluble, no TIR) Contig_1180 6329618 6331531 sense NEME_181 KN483284.1 21038 22885 antisense KN461357.1 71184 173046 antisense JACN01133478.1 19162 21039 sense KN521806.1 13188090 13189970 sense TLR7 Contig_362 1344147 1347311 antisense NEME_48 KN485610.1 28274 31438 antisense KN467456.1 224760 227924 antisense KN490378.1 72091 75249 sense KN525452.1 2120522 2117358 antisense TLR8 Contig_362 1339796 1342936 antisense NEME_48 KN485610.1 24587 27682 antisense KN467456.1 21153 224281 antisense KN490378.1 76010 79111 sense KN525452.1 2121357 2124431 sense TLR9 Contig_305 12201047 12204355 antisense NEME_37 KN472689.1 1 2840 antisense KN462803.1 797780 801229 antisense KN501825.1 31694 34871 sense KN524227.1 1931298 1934483 sense TLR14 Contig_1562 1111301 1119298 antisense NEME_257 KN476716.1 4977 12122 antisense KN466018.1 226205 233816 sense KN489893.1 8043 17058 sense KN521930.1 1446725 1458007 antisense TLR21 Contig_275 3514113 3517057 antisense NEME_33 KN477399.1 21236 24151 sense KN463352.1 524846 527761 sense KN500396.1 16948 19863 antisense KN525603.1 4573333 4576254 sense TLR21 Contig_289 82846 85790 antisense NEME_36 TLR22 Contig_276 2142461 2150631 antisense NEME_34 KN483411.1 44254 47119 sense KN467472.1 46754 53789 antisense JACN01030924.1 15160 18031 sense KN523573.1 415711 427643 antisense TLR22 Contig_276 2126338 2131475 antisense NEME_34 KN478351.1 1709 5643 sense KN465255.1 493311 498074 sense KN506245.1 4744 9235 sense KN521841.1 1290501 1296173 sense TLR22 Contig_276 2113372 2122151 antisense NEME_34 KN469728.1 2068 6190 antisense KN461469.1 42612 46730 sense JACN01102642.1 1946 5376 sense KN522735.1 585 4410 sense small indel TLR22 Contig_5216 18950 22088 antisense NEME_1348 KN466808.1 129592 134594 sense KN522700.1 834783 838999 antisense short, missing lead (gap) TLR22 Contig_5216 35394 40591 antisense NEME_1348 KN522700.1 840192 844087 antisense TLR22/23 Contig_1386 53016 58870 antisense NEME_219 JACM01014076.1 6988 10909 antisense KN461375.1 42951 46379 antisense KN513524.1 1 3086 antisense KN521858.1 3700 8604 antisense TLR22/23 Contig_1386 7749 13602 antisense NEME_219 JACM01014076.1 1 2876 antisense KN461375.1 35364 38560 sense KN517762.1 4170 9588 sense KN521980.1 18744 23406 sense TLR22/23 Contig_1390 100000 106983 antisense NEME_220 JACM01015485.1 1 5695 antisense KN464467.1 18015 20835 sense KN518146.1 1 2270 antisense KN521980.1 1638 4365 antisense TLR22/23 Contig_1390 90224 96678 antisense NEME_220 JACM01029142.1 1 3778 sense end of scf KN464753.1 23376 26151 sense KN510011.1 1 4558 antisense KN522985.1 779913 784431 sense TLR22/23 Contig_1823 3023003 3028748 antisense NEME_310 JACM01076057.1 5267 8338 sense KN464753.1 6708 11934 antisense KN511955.1 1 2535 antisense KN522985.1 775076 779804 sense TLR22/23 Contig_1823 3033417 3041179 antisense NEME_310 KN469087.1 14886 18682 sense KN465702.1 13179 16828 antisense KN511299.1 2134 6349 antisense missing lead, not in aln KN523599.1 423653 427329 antisense TLR22/23 Contig_1682 648823 652682 sense NEME_275 KN469087.1 1 4944 antisense KN465791.1 18038 24309 antisense JACN01062416.1 1 3963 antisense KN523599.1 415005 418430 antisense TLR22/23 Contig_1682 652829 662120 sense NEME_275 KN472561.1 5104 10861 antisense missing lead, end of scf KN465257.1 1 2000 antisense frameshifts, not in aln JACN01207681.1 1 740 sense short, not in aln KN524665.1 291182 294509 antisense TLR22/23 Contig_2107 3297687 3303353 sense NEME_387 KN485528.1 72662 76041 antisense KN461847.1 1 3057 sense short, not in aln JACN01114083.1 903 2231 sense short, not in aln KN524893.1 3242813 3246424 sense TLR22/23 Contig_2242 1143202 1149101 sense NEME_421 JACM01007922.1 1 6953 antisense small indel JACL01063932.1 16 765 antisense short, not in aln JACN01207982.1 90 803 antisense short, not in aln KN525449.1 9045 15080 sense TLR22/23 Contig_2242 1324405 1328761 sense NEME_421 JACM01085594.1 1 1086 antisense short, not in aln JACN01209105.1 468 1187 sense short, not in aln KN525449.1 16565 20363 sense TLR22/23 Contig_2244 54330 59545 sense NEME_422 JACM01085612.1 1 946 antisense short, not in aln KN525591.1 94353 101283 antisense TLR22/23 Contig_2284 560000 568859 sense NEME_428 KN525645.1 49077 54885 sense TLR22/23 Contig_2887 26151 32607 sense NEME_589 TLR22/23 Contig_2887 34823 39929 sense NEME_589 TLR22/23 Contig_2887 48061 53303 sense NEME_589 TLR22/23 Contig_2890 121397 129072 sense NEME_591 TLR22/23 Contig_3661 120879 130318 sense NEME_904 TLR22/23 Contig_3662 214042 220426 sense NEME_905 TLR22/23 Contig_2267 83723 91189 antisense NEME_425 TLR22/23 Contig_1385 88776 102838 sense NEME_218 TLR22/23 Contig_2241 599030 604249 sense NEME_420 TLR22/23 Contig_2890 43284 48607 sense NEME_591 TLR22/23 Contig_2890 53889 58970 sense NEME_591 TLR22/23 Contig_2890 58000 66017 sense NEME_591 TLR22/23 Contig_2890 75143 81627 sense NEME_591 TLR22/23 Contig_2891 43710 51365 sense NEME_592 TLR22/23 Contig_522 9292 19167 sense NEME_62 TLR22/23 Contig_2887 10285 15324 sense NEME_589 TLR22/23 Contig_2887 19142 24248 sense NEME_589 TLR22/23 Contig_2890 113421 118500 sense NEME_591 TLR22/23 Contig_2890 68100 73292 sense NEME_591 TLR22/23 Contig_2890 83518 88605 sense NEME_591 TLR22/23 Contig_2890 87605 95849 sense NEME_591 TLR22/23 Contig_2890 95849 110708 sense NEME_591 TLR22/23 Contig_2891 13327 17777 sense NEME_592 TLR22/23 Contig_2891 16777 25791 sense NEME_592 TLR22/23 Contig_2891 27556 32696 sense NEME_592 TLR22/23 Contig_2891 35362 40507 sense NEME_592 TLR22/23 Contig_2891 5439 10472 sense NEME_592 TLR25 Contig_2245 406581 409150 sense NEME_423 no hit no hit KN519263.1 869 3331 antisense KN523798.1 615768 618233 antisense TLR26 no hit no hit no hit no hit no hit PRRs CIITA Contig_2585 3985719 3993128 antisense NEME_493 CRP/APCS(SAP) and the like Clade1 w/HOSA and MUMU Contig_2104 2343748 2345003 sense NEME_386 JACM01040006.1 3197 4557 antisense_endscf JACL01062129.1 1 1064 antisense fragment JACN01023219.1 4123 6539 sense KN522858.1 1 833 sense fragment Clade1 w/HOSA and MUMU Contig_2104 2351825 2352622 sense NEME_386 JACM01059135.1 6689 8315 sense KN463057.1 44695 48264 sense JACN01023219.1 8688 11081 sense KN523248.1 1144671 1146285 antisense Clade1 w/HOSA and MUMU Contig_2921 299210 299819 sense NEME_606 JACM01080030.1 1111 2783 sense fragment KN464795.1 979 5877 sense JACN01023219.1 10950 13185 sense KN523248.1 2511396 2512593 antisense fragment Clade2a fish-specific Contig_2482 1247372 1249181 sense NEME_461 KN471850.1 66561 69699 sense KN464795.1 10653 14140 sense fragment JACN01023219.1 13519 15021 sense fragment KN525224.1 11042125 11044055 antisense Clade2a fish-specific Contig_2613 1379662 1380776 sense NEME_503 KN480074.1 2202 4973 sense KN465958.1 1 3473 antisense fragment KN514866.1 29589 31242 sense KN525224.1 11045006 11046231 antisense fragment Clade2a fish-specific Contig_3422 67654 68628 sense NEME_808 KN480074.1 5564 8391 sense KN465958.1 6740 10078 antisense KN525224.1 11045885 11048130 antisense Clade2a fish-specific Contig_3422 69441 70415 sense NEME_808 KN480074.1 13940 15924 sense KN465958.1 11588 12785 antisense fragment KN525224.1 11048600 11050202 antisense Clade2a fish-specific Contig_3558 168544 172420 sense NEME_867 KN466545.1 1425400 1427023 sense KN525224.1 11053407 11055365 antisense Clade2a fish-specific Contig_3561 129441 133294 antisense NEME_869 KN525224.1 11055333 11058877 antisense Clade2a fish-specific Contig_447 3729397 3730588 sense NEME_58 KN525224.1 11061299 11063741 antisense Clade2a fish-specific Contig_447 3732112 3732943 sense NEME_58 Clade2b fish-specific Contig_1395 1720386 1722505 antisense NEME_222 Clade2b fish-specific Contig_1395 1726901 1728634 antisense NEME_222 Clade2b fish-specific Contig_2379 1794242 1799273 antisense NEME_441 Clade2b fish-specific Contig_2379 1152457 1158839 antisense NEME_441 Clade2b fish-specific Contig_2994 1001174 1004252 sense NEME_643 Clade2b fish-specific Contig_2994 1038455 1042282 sense NEME_643 Clade2b fish-specific Contig_2994 1014064 1019252 sense NEME_643 Clade2b fish-specific Contig_2994 979007 982441 sense NEME_643 Clade2b fish-specific Contig_2994 972047 975229 sense NEME_643 Clade2b fish-specific Contig_2994 206127 208636 antisense NEME_643 Clade2b fish-specific Contig_2994 50944 54728 sense NEME_643 Clade2b fish-specific Contig_447 3709900 3712331 sense NEME_58 Clade2b fish-specific Contig_447 3716017 3720662 sense NEME_58 Clade2b fish-specific Contig_447 3723554 3725039 sense NEME_58 NOD1 Contig_275 2672284 2679021 sense NEME_33 NOD2 Contig_954 3412098 3418160 sense NEME_131 Interleukins IL1 Contig_30 3798936 3799744 antisense NEME_6 KN471281.1 22484 23880 sense IL1_like KN462367.1 2012398 2013899 sense IL1_like JACN01106592.1 15012 16449 antisense IL1_like KN524552.1 283498 285121 antisense IL1_like IL1 Contig_30 3792895 3793702 antisense NEME_6 JACM01034884.1 1 544 sense first half KN464082.1 17300 18760 antisense JACN01152209.1 9784 11320 sense KN525272.1 2028323 2029792 antisense IL1 Contig_30 3786020 3786829 antisense NEME_6 JACM01085377.1 1 735 antisense second half JACL01055421.1 424 1869 sense IL1 Contig_1684 119222 120537 antisense NEME_276 IL1 like JACL01056982.1 669 2114 antisense IL1 JACL01074819.1 1 213 antisense fragment IL4/13 Contig_2747 93909 93802 antisense NEME_537 IL6 Contig_1333 4707900 4709078 sense NEME_212 IL8 Contig_9 2760007 2760535 sense NEME_4 KN485115.1 168847 169649 antisense KN460935.1 557387 558281 sense KN518546.1 1243 1954 antisense KN524274.1 5210242 5210932 sense IL8 Contig_9 2748255 2749162 antisense NEME_4 KN485115.1 174527 175371 sense KN460935.1 552033 552900 antisense KN509920.1 1 842 sense KN524274.1 5204517 5205446 antisense IL10 Contig_742 2234199 2237712 sense NEME_94 Misc IFNg Contig_542 1653832 1655911 sense NEME_68 TNFa Contig_2475 657904 659572 antisense NEME_459 TNFa-like Contig_699 562988 568517 antisense NEME_80 TNFa-like Contig_700 528287 533836 sense NEME_81 Adaptive and related AICDA Contig_447 597424 599014 sense NEME_58 AIRE Contig_79 14106230 14113573 antisense NEME_9 B2M Contig_2242 363050 363352 antisense NEME_421 B2M_pseudo Contig_2242 368352 368721 antisense NEME_421 CD4 Contig_1334 340445 348248 sense NEME_213 CD74 Contig_593 791743 796652 antisense NEME_71 CD8a Contig_3231 634222 648487 antisense NEME_729 CD8b Contig_3231 656030 660462 antisense NEME_729 IgH Divided between Contig 3340 and 4064 which have some sequence overlap. Variable regions spread across additional contigs, but have not been investigated further due to shear number. Found only IgM and IgD. See own figure. Contig_3340 1 28711 antisense NEME_772 IgM and first 4 IgD Contig_4064 368544 387339 antisense NEME_1071 Last 4 IgD MHCI 26 classical MHCI U-lineage sequences covering core region. Some fragments in addition not inlcuded in phylogeny or counting. Contig_1105 41502 45359 sense NEME_158 Sequence start/end is +/- 500 bp from analyzed core region Contig_4227 384413 386998 sense NEME_1120 Contig_1105 367874 374038 antisense NEME_158 Contig_1105 379314 383186 antisense NEME_158 Contig_1105 389652 393489 antisense NEME_158 Contig_1105 398857 402936 antisense NEME_158 Contig_2107 3007487 3011566 antisense NEME_387 Contig_2107 3035637 3040830 antisense NEME_387 Contig_2107 3066825 3070867 antisense NEME_387 Contig_2107 3097761 3103266 antisense NEME_387 Contig_2107 3106129 3110656 antisense NEME_387 Contig_2426 2038102 2040551 antisense NEME_449 Contig_2426 2043798 2047326 antisense NEME_449 Contig_3034 582725 585724 antisense NEME_664 Contig_3034 632051 635014 antisense NEME_664 Contig_3086 193828 198923 antisense NEME_680 Contig_3086 214042 217138 antisense NEME_680 Contig_3396 1033257 1039264 antisense NEME_798 Contig_3396 407187 411970 antisense NEME_798 Contig_3567 10956 16526 antisense NEME_873 Contig_3567 25897 28329 antisense NEME_873 Contig_3567 31217 36390 antisense NEME_873 Contig_3958 58409 61913 antisense NEME_1034 Contig_3958 79735 83515 antisense NEME_1034 Contig_3958 94426 97813 antisense NEME_1034 Contig_4115 15846 21659 antisense NEME_1088 MHCII 8 alphas, where two are fragments. 9 betas Contig_1748 279618 287164 antisense NEME_291 alpha Contig_1748 269829 271863 antisense NEME_291 alpha Contig_4325 30835 34427 antisense NEME_1155 alpha Contig_4349 28226 29687 sense NEME_1163 alpha Contig_4349 58314 61051 sense NEME_1163 alpha Contig_4413 50536 51844 sense NEME_1185 alpha Contig_447 2890257 2891827 sense NEME_58 alpha, short with frameshifts Contig_447 2886999 2889456 sense NEME_58 alpha, short Contig_447 2893878 2896525 sense NEME_58 beta Contig_4711 38466 40294 antisense NEME_1272 beta Contig_4958 43169 44713 sense NEME_1319 beta Contig_4958 23343 25695 sense NEME_1319 beta Contig_5344 24148 25705 sense NEME_1357 beta Contig_541 7022014 7023644 antisense NEME_67 beta Contig_541 7031331 7032958 sense NEME_67 beta Contig_541 7020573 7022154 antisense NEME_67 beta Contig_541 7032821 7034398 sense NEME_67 beta RAG1 Contig_787 4690414 4695142 sense NEME_106 RAG2 Contig_787 4699042 4700651 antisense NEME_106 TAP1 Contig_2864 694776 722339 sense NEME_582 TAP2 Contig_2107 2987106 2993287 antisense NEME_387 TAP2T (similar to TAP2) Contig_1786 3697645 3704089 sense NEME_299 Tapasin Contig_2107 3111989 3119308 sense NEME_387 Caspases Caspase1 Contig_1332 2383796 2390028 antisense NEME_211 KN478126.1 1 5000 sense KN463965.1 652947 656040 sense KN506444.1 20795 25921 sense KN524030.1 440587 445717 antisense Contig_1332 2389100 2396444 antisense NEME_211 large indel, not in aln Contig_1332 2396807 2404380 antisense NEME_211 Contig_2863 294748 300387 antisense NEME_581 Contig_2890 222443 227964 antisense NEME_591 Contig_3435 71265 76698 antisense NEME_811 Contig_3435 110465 115709 antisense NEME_811 Contig_3435 143954 149688 antisense NEME_811 Contig_3435 195855 201468 antisense NEME_811 Contig_3435 230160 234967 antisense NEME_811 several indels, not in aln Contig_3437 25939 31736 antisense NEME_812 Contig_3437 60555 66045 antisense NEME_812 Contig_702 1 6040 antisense NEME_82 Contig_3438 8851 14637 sense NEME_813 Contig_3438 54600 60154 sense NEME_813 Contig_699 113158 118710 sense NEME_80 Contig_699 127808 133397 sense NEME_80 Contig_699 146714 152271 sense NEME_80 Contig_702 126284 132042 sense NEME_82 Contig_702 131474 136770 sense NEME_82 Caspase2 Contig_447 311909 317793 antisense NEME_58 Caspase3 Contig_1132 953737 964054 sense NEME_164 Caspase3 Contig_1132 925982 932934 sense NEME_164 Caspase3 Contig_1132 970408 983347 sense NEME_164 Caspase3 Contig_1132 994183 1000179 sense NEME_164 Caspase3 Contig_9 9859389 9863703 antisense NEME_4 Caspase6 Contig_9 6304238 6306337 antisense NEME_4 Caspase7 Contig_2157 3430801 3432976 sense NEME_393 Odd sequence, clusters outside of Caspase7 clade. Caspase8 Contig_79 9078865 9088196 antisense NEME_9 Caspase8 Contig_362 452859 454879 antisense NEME_48 Caspase9 Contig_948 416301 432556 antisense NEME_126