Table 1.
MIP genes in Populus genome identified from the NCBI whole genome shotgun contigs.
| Name | NCBI WGS contig accession number | JGI accession number | EST accession | NPA motif (LB)a | NPA motif (LE)a | Chromosome locatione |
|---|---|---|---|---|---|---|
| PtPIP1;1 | AARH01004386 | 724520 | DT472648 | - | - | X |
| PtPIP1;2 | AARH01003541 | 656216 | BU868142 | - | - | VIII |
| PtPIP1;3 | AARH01001832 | 711735 | DT474111 | - | - | III |
| PtPIP1;4 | AARH01003029 | 831918 | - | - | VI | |
| PtPIP1;5 | AARH01006875 | 835561 | - | - | XVI | |
| PtPIP2;1 | AARH01003794 | 821084 | DT478685 | - | - | IX |
| PtPIP2;2 | AARH01002541 | 648808 | DT473513 | - | - | IV |
| PtPIP2;3 | AARH01004412 | 567607 | DT474367 | - | - | X |
| PtPIP2;4 | AARH01003539 | 563742 | DT472264 | - | - | VIII |
| PtPIP2;5 | AARH01008299 | 826419 | BU868919 | - | - | * |
| PtPIP2;6b | AARH01008299 | N/A | CV227359 | - | - | * |
| PtPIP2;7 | AARH01006751 | 735495 | DT498815 | - | - | XVI |
| PtPIP2;8 | AARH01003912 | 821627 | - | - | IX | |
| PtPIP2;9c | 836572 | - | - | * | ||
| PtPIP2;10 | AARH01008738 | 796664 | - | - | * | |
| PtTIP1;1 | AARH01000429 | 549212 | - | - | I | |
| PtTIP1;2 | AARH01003864 | 833283 | DT499779 | - | - | IX |
| PtTIP1;3 | AARH01004405 | 822504 | DT476627 | - | - | X |
| PtTIP1;4 | AARH01003540 | 656044 | BU875073 | - | - | VIII |
| PtTIP1;5 | AARH01006799 | 667870 | DT497619 | - | - | XVI |
| PtTIP1;6 | AARH01008323 | 589502 | DT497300 | - | - | * |
| PtTIP1;7 | AARH01003929 | 558321 | - | - | IX | |
| PtTIP1;8 | AARH01010693 | 828458 | - | - | * | |
| PtTIP2;1 | AARH01000349 | 548890 | DT496472 | - | - | I |
| PtTIP2;2 | AARH01001731 | 645978 | DT488368 | - | - | III |
| PtTIP2;3 | AARH01001777 | 817166 | - | - | III | |
| PtTIP2;4 | AARH01008349 | 676397 | - | - | * | |
| PtTIP3;1 | AARH01010701 | 584517 | - | - | * | |
| PtTIP3;2 | AARH01011328 | 811826 | - | - | * | |
| PtTIP4;1 | AARH01003145 | 561759 | CV233830 | - | - | VI |
| PtTIP5;1d | AARH01001826 | 414059 | - | - | III | |
| PtTIP5;2d | AARH01008384 | 423803 | - | - | * | |
| PtNIP1;1d | AARH01002108 | 197507 | - | - | IV | |
| PtNIP1;2d | AARH01004854 | 235172 | - | - | XI | |
| PtNIP1;3 | AARH01004327 | 566501 | - | - | X | |
| PtNIP1;4c | 756079 | - | - | II | ||
| PtNIP1;5c | 754717 | - | - | II | ||
| PtNIP2;1 | AARH01007172 | 577637 | - | - | XVII | |
| PtNIP3;1 | AARH01001861 | 757987 | NPS | NPV | III | |
| PtNIP3;2 | AARH01000110 | 797136 | NPS | NPV | I | |
| PtNIP3;3 | AARH01000968 | 708017 | DT488082 | - | - | I |
| PtNIP3;4 | AARH01005007 | 823094 | - | - | XI | |
| PtNIP3;5 | AARH01003691 | 803915 | - | - | VIII | |
| PtSIP1;1 | AARH01005657 | 729942 | NPT | - | XIII | |
| PtSIP1;2 | AARH01007966 | 665418 | DT487219 | NPT | - | XIX |
| PtSIP1;3 | AARH01001280 | 755885 | - | - | II | |
| PtSIP1;4c | 572968 | - | - | XIX | ||
| PtSIP2;1 | AARH01006621 | 734665 | DN491635 | NPL | - | XVI |
| PtSIP2;2 | AARH01002935 | 652505 | NPL | - | VI | |
| PtXIP1;1 | AARH01022440 | 829126 | NPI | - | * | |
| PtXIP1;2 | AARH01003797 | 557139 | NPI | - | IX | |
| PtXIP1;3 | AARH01002537 | 759781 | NPI | - | IV | |
| PtXIP1;4 | AARH01003797 | 767334 | NPL | - | IX | |
| PtXIP1;5 | AARH01003797 | 821124 | - | - | IX | |
| PtXIP2;1 | AARH01003797 | 557138 | SPV | - | IX | |
aDeviation of NPA signature motif in loops B and E is reported. '-' indicates that NPA motif is conserved.
bThis gene is not listed in JGI. The coding regions in the NCBI WGS contig are 173376-173676, 173811-174106, 174224-174364, 174465-174584.
cFour PtMIP genes are not found in our TBLASTN search of NCBI database. Their JGI accession codes are given.
dThe sequences for these genes predicted by GeneMark are longer than those found in JGI. GeneMark-predicted sequences have extensions in N- or C-terminus. In this study, we have used GeneMark predicted sequences due to their similarity with Arabidopsis sequences
eThe symbol '*' indicates that these genes are located on a scaffold not yet assigned to a chromosome.