Table 3 |
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|
Features of variable internal tandem repeats present in paralogs of the human morpheus gene |
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|
ITRs in genome |
ITRs in mRNA |
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|
|
|
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|
Group ID |
Genomic locus of exon 8 |
Exon length (bp) |
Type1 |
Type2 |
CNVs |
Associated proteins or transcripts |
Exon length (aa) |
Type1 |
Type2 |
|
|
|||||||||
|
G29 |
chr.16:68567795-68568136 |
342 |
1 |
0 |
1 |
NR_003610, PDXC2 * (U) |
- |
1 |
0 |
|
chr.18:11928734-11929237 |
504 |
2 |
2 |
0 |
- |
- |
- |
- |
|
|
chr.16:14952973- |
408 |
3 |
0 |
4 |
BC023572 * (M) |
- |
2 |
0 |
|
|
14953380 |
NP_008916, morpheus (B) |
136 |
3 |
0 |
|||||
|
chr.16:15365020-15365427 |
408 |
3 |
0 |
2 |
- |
- |
- |
- |
|
|
chr.16:11609511-11609918 |
408 |
3 |
1 |
0 |
- |
- |
- |
- |
|
|
chr.16:28261432-28262010 |
579 |
3 |
2 |
1 |
- |
- |
- |
- |
|
|
chr.16:15105678-15106116 |
439 |
4 |
0 |
1 |
- |
- |
- |
- |
|
|
chr.16:16351450-16351914 |
465 |
4 |
0 |
3 |
BAC85871 (U) |
155 |
4 |
0 |
|
|
chr.16:16394814-16395312 |
465 |
4 |
0 |
3 |
NP_848636 (M) |
155 |
4 |
0 |
|
|
chr.16:18319329-18319793 |
465 |
4 |
0 |
5 |
NP_848636 (M) |
155 |
4 |
0 |
|
|
chr.16:18359482-18359946 |
465 |
4 |
0 |
5 |
NP_848636 (M) |
155 |
4 |
0 |
|
|
chr.16:28375249-28375848 |
600 |
4 |
2 |
2 |
- |
- |
- |
- |
|
|
chr.16:28690975-28691574 |
600 |
4 |
2 |
4 |
- |
- |
- |
- |
|
|
chr.16:28576850-28577449 |
600 |
4 |
2 |
5 |
- |
- |
- |
- |
|
|
chr.16:72982790-72983476 |
687 |
4 |
2 |
5 |
AAI60029, NPIPL2 (U) |
229 |
4 |
2 |
|
|
chr.16:28970894-28971553 |
660 |
4 |
2 |
1 |
- |
- |
- |
- |
|
|
G40 |
chr.16:22452448-22455204 |
2757 |
35 |
4 |
12 |
NP_001129337 (U) |
919 |
35 |
4 |
|
AAH94882 (B) |
544 |
18 |
4 |
||||||
|
NP_569731, NPIPL3 (B) |
464 |
14 |
4 |
||||||
|
chr.16:29300271-29303111 |
2841 |
37 |
3 |
2†‡ |
- |
- |
- |
- |
|
|
chr.16:30141785-30144625 |
2841 |
37 |
4 |
2 |
BAC87606 (B) |
794 |
29 |
4 |
|
|
chr.16:21321092-21324115 |
3024 |
39 |
4 |
5†§ |
BAG65049 (U) |
970 |
39 |
3 |
|
|
BAG64593 (U) |
849 |
31 |
4 |
||||||
|
NP_569731 (B) |
464 |
14 |
4 |
||||||
|
chr.16:21753543-21756566 |
3024 |
39 |
4 |
10† |
BAA13210 (B) |
840 |
31 |
4 |
|
|
|
|||||||||
|
The paralogous sequences of morpheus exon 8 were detected and characterized for the presence and number of type 1 and 2 ITRs. Group IDs refer to Additional file 1. Exon length is reported in base pairs and in amino acids (aa) only when supported by coding mRNAs. Unique (U), best (B) or multiple (M) transcript support is reported for each locus. CNVs that overlap the genomic locus of exon 8 are indicated. *ITRs residing in non-coding RNAs. †CNVs overlapping exclusively with ITRs, and corresponding to identifiers ‡30774, §30757 and 30761 of the Database of Genomic Variants. |
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|
De Grassi and Ciccarelli Genome Biology 2009 10:R137 doi:10.1186/gb-2009-10-12-r137 |
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