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. 2010 Apr 28;106(1):78–87. doi: 10.1038/hdy.2010.36

Table 4. Summary of TEs identified in the scan of gastropod MCS against Repbase.

Species TE classa TE descriptionb Known TEc A/NAd MCS name Similarity (%)e Alignment length (bp)f Alignment scoreg GenBank accession no.h Source
G. cineraria
  DNA transposon                  
    MITE CvA NA Gcin1i 81 63 345 GQ129680 This study
    MITE CvA NA Gcin2i 66 70 222 GQ129681 This study
    MITE CvA NA Gcin8i 71 63 217 GQ129687 This study
    MITE CvA NA Gcin11i 77 71 377 GQ129690 This study
    MITE CvA NA Gcin12i 66 70 246 GQ129691 This study
    MITE CvA NA Gcin16i 73 63 275 GQ129695 This study
    MITE CvA NA Gcin20i 72 60 258 GQ129699 This study
    MITE CvA NA Gcin20i 84 66 424 GQ129699 This study
    MITE CvA NA Gcin24i 80 63 375 GQ129703 This study
    MITE CvA NA Gcin26i 77 63 315 GQ129705 This study
    MITE CvA NA Gcin30i 78 66 362 GQ129709 This study
    MITE CvA NA Gcin35i 73 63 279 GQ129714 This study
    MITE CvA NA Gcin40i 67 125 346 GQ129719 This study
    MITE CvA NA Gcin44i 86 56 374 GQ129723 This study
    MITE CvA NA Gcin48i 75 63 286 GQ129727 This study
    MITE CvA NA Gcin49i 100 24 234 GQ129728 This study
    MITE CvA NA Gcin56i 77 63 312 GQ129735 This study
    MITE CvA NA Gcin57i 85 66 453 GQ129736 This study
    MITE CvA NA Gcin61i 75 66 305 GQ129740 This study
    Helitron DNAREP1_DYak NA Gcin13i 71 123 436 GQ129692 This study
    Helitron DNAREP1_DYak NA Gcin32i 74 101 414 GQ129711 This study
    Helitron DNAREP1_DYak NA Gcin42i 80 101 471 GQ129721 This study
    Helitron DNAREP1_DYak NA Gcin47i 66 122 376 GQ129726 This study
    Helitron Helitron-N1_SP NA Gcin46i 73 87 359 GQ129725 This study
  LTR retrotransposon                  
    ERV1 ERV46_MD_I NA Gcin53i 74 150 489 GQ129732 This study
    ERV1 HERV17 NA? Gcin54 72 143 264 GQ129733 This study
    ERV3 MonoRep289C NA? Gcin26i 80 78 212 GQ129705 This study
                     
L. littorea
  DNA transposon                  
    En/Spm (CACTA) EnSpm-1_HV A? Llit1 84 76 424 FJ480214 McInerney et al. (2009a)
    En/Spm (CACTA) EnSpm-1_HV A? Llit110 86 40 247 GQ129786 This study
    En/Spm (CACTA) ATENSPM5 A Llit65 74 85 247 GQ129744 This study
    Mariner Mariner-6_HM NA? Llit17 74 94 263 FJ480220 McInerney et al. (2009a)
    Mariner Mariner-4A_AF NA Llit64 88 33 231 GQ129743 This study
    hAT hAT-16_ZM A Llit64 73 60 222 GQ129743 This study
    Arnold ARNOLD1 A Llit66 89 34 222 GQ129745 This study
    MuDR (MULE) MuDR1_ZM A Llit66 88 32 216 GQ129745 This study
  LTR retrotransposon                  
    Gypsy Gypsy41-LTR_DR ? Llit50 78 55 212 FJ480221 McInerney et al. (2009a)
  Non-LTR retrotransposon                  
    LINE L2_Plat1h A? Llit55 68 135 301 FJ480218 McInerney et al. (2009a)
    SINE SINE2-4a1_SP NA? Llit62 91 53 251 GQ129741 This study
    SINE SINE2-1_SP NA Llit80i 85 46 301 GQ129759 This study
                     
L. saxatilis
  DNA transposon                  
    MuDR (MULE) MDR2 A? Lsax20 80 83 322 FJ794783 McInerney et al. (2009b)
    Mu-like MERMITE-18 NA? Lsax66 80 82 262 GQ129838 This study
a

Class of transposable element.

b

Transposable element description as defined by Repbase.

c

Name of known transposable element provided by Repbase.

d

Autonomous/non-autonomous/not specified transposition mechanism according to Repbase or Web of Science.

e

Value of similarity between two aligned sequences (for details see Kohany et al., 2006).

f

Alignment length between two aligned DNA sequences.

g

Sum of match/mismatch scores and penalties for gap opening/extension estimated from the alignment matrix (Kohany, personal communication).

h

GenBank accession numbers.

i

The MCS grouped into a DNA family based on sequence similarities among flanking regions (for more details see Table 3).