RetrogeneDB ID: | retro_ecab_586 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 22:8247489..8249256(+) | ||
| Located in intron of: | ENSECAG00000007559 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SENP2 | ||
| Ensembl ID: | ENSECAG00000011230 | ||
| Aliases: | None | ||
| Description: | SUMO1/sentrin/SMT3 specific peptidase 2 [Source:HGNC Symbol;Acc:23116] |
Retrocopy-Parental alignment summary:
>retro_ecab_586
ATGTACAAATGGCTGGTTAGGATTCTCGGCACCATTTTCCGTCTCTGTGACCGGCCGGTGCCCCCTGCCCGGGCCCTCCT
GAAGAGGTGGCGCTCGAACAGCACTCTGTTGTCTACAGTGGACACTGATGAAATACCAGCCAAAAGACCAAGATTAGATT
GTTTTATTCACCAAGTGAAAACCAGTCTCTACAATGCTGCCGGCTTATTTGGATTCCCATTCCAGCTGAACACAAAGCCC
ATGGTAACTGCTGCTTGTAATGGAACACGGAATGTGGCCCCTTCAGAAGAGGTATTTTCAAACTCCTCATCTTGTGAACT
GACAGGTTCTGGATCCTGGAACAACATGCTGAAACTGGGTAATAAATCTCCTAATGGAATAAGTGACTATCCAGAGATCA
GAGTGATAGTAACCCGAGATCAGCCTCGCAGAGTCCTGCCTTCCTTTGGTTTTACCTTGAACTCAGAAGGCTATAATAGA
AGACCCGGTGGCCGTTGCCATAGCAAAAGCAATCCAGAGAGTTCCTTAACGTGGAAACCTCAAGAGCAGGTTGTAACAGA
GATGATCTCTGAAGAGGGTGGCAAGGGTCTGAGGCGTCCCCATTGTACAGTGGAGGAGGGTGTTCAAAAAGAGGAAAGAG
AGAAGTACTGGAGGTTATTGGAGCGACTTAAAGAAGGTGGTCATGGAAACACTGTTCCTCCTGTAACTTCAGCACATCAT
AGTTCTCAAAGAAGTCGCACGGACTCATTAAAGACCAAAGGCTGGGGGGAAGAGCAAAGTCACAGAGTCAAAACAGCTTA
GTTTGTTCCAAAATCATATAGAGTTGTTGAAACAAGGGGACCTCTGTGTTCTGTGAGAAGTGAAAAGAGATGTTCAAAGG
GGAAAATTTCTGATATAGAGAAGACAGTTGGAATCAGACTCGAAAATGAAGGTAGGAGAGGACACCAGCTGGAACCTGAC
CTGTCTGAAGAAGTGTCAGCCTGGCTCCGCCTAGGCAGTGGAAGCAATGGCTTACTCAGGAGGAAGATGTCAATACTTGA
GACTAAAGAGAAAAATTGCTCAGGCAGAGACAGGGATAAGAGGACGGATGATCTTCTTGAACTTACAGAGGACATGGAAA
AGGAAATCAGTAATGCCCTAGGCCATGGCCCTCAGGATGAGATTCTAAGTAGCGCTTTCAAACTCCGAATCACTCGAGGA
GATATCCAGACCTTGAAGAACTATCACTGGCTCAATGACGAAGTCATTAATTTTTACATGAATCTTCTGGTGGAAAGAAA
TAAAAAACAAGGGTATCCAGCACTTCATGCATTCAGTACTTTCTTCTATCCCAAATTAAAGTCTGGGGGTTACCAAGCAG
TGAAAAGATGGACCAAAGGGGTCAATCTCTTTGAACAGGAACTTATTCTGGTGCCTATTCATCGGAAGGTACATTGGAGC
CTGGTGGTGATAGACCTAAGAAAAAAGTGTCTTAAATATCTGGATTCTATGGGACAAAAGGGCCATAGGATCTGTGAGAT
TCTCCTTCAGTATTTACAGGAGGAAAGTAAGACCAAAAGAAATATTGATCCGAATCTTTTAGAGTGGACCCACTACAGCA
TGAAGCCACATGAGATTCCTCAACAGGTGAATGGGAGTGATTGTGGAATGTTTACTTGTAAATATGCAGATTATATCTCT
AGGGACAAACCTATCACATTTACTCAGCACCAGATGCCTCTCTTCCGGAAGAAGATGGTGTGGGAAATCCTTCATCAGCA
GTTACTG
ORF - retro_ecab_586 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.28 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MYKWLVRILGTIFRLCDRPVPPARALLKRRRSNSTLLSTVDTDEIPAKRPRLDCFIHQVKTSLYNAASLF |
| MYKWLVRILGTIFRLCDRPVPPARALLKR.RSNSTLLSTVDTDEIPAKRPRLDCFIHQVKTSLYNAA.LF | |
| Retrocopy | MYKWLVRILGTIFRLCDRPVPPARALLKRWRSNSTLLSTVDTDEIPAKRPRLDCFIHQVKTSLYNAAGLF |
| Parental | GFPFQLNTKPMVTAACNGTRNVAPSEEVFSNSSSCELTGSGSWNNMLKLGNKSPNGISDYPKIRVTVTRD |
| GFPFQLNTKPMVTAACNGTRNVAPSEEVFSNSSSCELTGSGSWNNMLKLGNKSPNGISDYP.IRV.VTRD | |
| Retrocopy | GFPFQLNTKPMVTAACNGTRNVAPSEEVFSNSSSCELTGSGSWNNMLKLGNKSPNGISDYPEIRVIVTRD |
| Parental | QPRRVLPSFGFTLNSEGYNRRPGGRRHSKSNPESSLTWKPQEQVVTEMISEEGGKGLRRPHCTVEEGVQK |
| QPRRVLPSFGFTLNSEGYNRRPGGR.HSKSNPESSLTWKPQEQVVTEMISEEGGKGLRRPHCTVEEGVQK | |
| Retrocopy | QPRRVLPSFGFTLNSEGYNRRPGGRCHSKSNPESSLTWKPQEQVVTEMISEEGGKGLRRPHCTVEEGVQK |
| Parental | EEREKYRRLLERLKEGGHGNTVPPVTSAHHSSQRSHTDTLKTKGWGEEQSHGVKTAQFVPKPYRVVETRG |
| EEREKY.RLLERLKEGGHGNTVPPVTSAHHSSQRS.TD.LKTKGWGEEQSH.VKTA.FVPK.YRVVETRG | |
| Retrocopy | EEREKYWRLLERLKEGGHGNTVPPVTSAHHSSQRSRTDSLKTKGWGEEQSHRVKTA*FVPKSYRVVETRG |
| Parental | PLCSVRSEKRCSKGKISDIEKTVGIRLENEGRRGHQLEPDLSEEVSARLRLGSGSNGLLRRKMSILETKE |
| PLCSVRSEKRCSKGKISDIEKTVGIRLENEGRRGHQLEPDLSEEVSA.LRLGSGSNGLLRRKMSILETKE | |
| Retrocopy | PLCSVRSEKRCSKGKISDIEKTVGIRLENEGRRGHQLEPDLSEEVSAWLRLGSGSNGLLRRKMSILETKE |
| Parental | KNCSGRDRDKRTDDLLELTEDMEKEISNALGHGPQDEILSSAFKLRITRGDIQTLKNYHWLNDEVINFYM |
| KNCSGRDRDKRTDDLLELTEDMEKEISNALGHGPQDEILSSAFKLRITRGDIQTLKNYHWLNDEVINFYM | |
| Retrocopy | KNCSGRDRDKRTDDLLELTEDMEKEISNALGHGPQDEILSSAFKLRITRGDIQTLKNYHWLNDEVINFYM |
| Parental | NLLVERNKKQGYPALHAFSTFFYPKLKSGGYQAVKRWTKGVNLFEQELILVPIHRKVHWSLVVIDLRKKC |
| NLLVERNKKQGYPALHAFSTFFYPKLKSGGYQAVKRWTKGVNLFEQELILVPIHRKVHWSLVVIDLRKKC | |
| Retrocopy | NLLVERNKKQGYPALHAFSTFFYPKLKSGGYQAVKRWTKGVNLFEQELILVPIHRKVHWSLVVIDLRKKC |
| Parental | LKYLDSMGQKGHRICELLLQYLQDESKTKRNIDLNLLEWTHYSMKPHEIPQQLNGSDCGMFTCKYADYIS |
| LKYLDSMGQKGHRICE.LLQYLQ.ESKTKRNID.NLLEWTHYSMKPHEIPQQ.NGSDCGMFTCKYADYIS | |
| Retrocopy | LKYLDSMGQKGHRICEILLQYLQEESKTKRNIDPNLLEWTHYSMKPHEIPQQVNGSDCGMFTCKYADYIS |
| Parental | RDKPITFTQHQMPLFRKKMVWEILHQQLL |
| RDKPITFTQHQMPLFRKKMVWEILHQQLL | |
| Retrocopy | RDKPITFTQHQMPLFRKKMVWEILHQQLL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP021940_articular_cartilage | 0 .06 RPM | 5 .25 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 6 .80 RPM |
| SRP021940_embryo | 0 .20 RPM | 8 .87 RPM |
| SRP021940_placental_villous | 0 .05 RPM | 6 .01 RPM |
| SRP021940_synovial_membrane | 0 .11 RPM | 3 .90 RPM |
| SRP021940_testis | 0 .90 RPM | 49 .24 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_586 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_586 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_586 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000011230 | 1 retrocopy |
retro_ecab_586 ,
|
| Rattus norvegicus | ENSRNOG00000001773 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000008239 | 1 retrocopy |