RetrogeneDB ID: | retro_pvam_1125 | ||
Retrocopy location | Organism: | Megabat (Pteropus vampyrus) | |
| Coordinates: | scaffold_31222:2566..4141(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FANCB | ||
| Ensembl ID: | ENSPVAG00000000827 | ||
| Aliases: | None | ||
| Description: | Fanconi anemia, complementation group B [Source:HGNC Symbol;Acc:3583] |
Retrocopy-Parental alignment summary:
>retro_pvam_1125
ATGACGAGCAAACAAGCAATGTTATCTAATAAACAAGAAAGGCTCATGTGTTATAATGGGGAAGTTCTTGTTTTTCGATT
GTCTAAAGGAAATTTTGCAGATAAAGGGCCTGCAGAAATACCCATATTACATGTCAGAAGAATGGTATTTGACAGAGGAA
CAAGAACATTTGTTCAGAAGTCTACTGGATTCTTTAACATAAAGGAAGAAAACTCTTATTTAAAAATTATGTGTTGCGAC
TGTGTGTCAGATTTCAGAACTGGGATGAACCTCCTTTGTATTGTTATACAATGCAATGAAAAGAGTGATGTTTTCAAATA
TTTTCTACTGTTTCTTCACAGTACCAATAAATTTGAAAAGTGTTTGAGTTTTAGACTAGGCCATGAGTTGAAGGATGGCA
TAAGGGTCTTTAATGGCCCTTTAATTTTATGGAAACATGTCAAAACATTCTTTTATATCTCTTCCCAAGCTGGCAATGTT
ATTACTGTGTCCATCAACTTTTCCTCTATTGAGTGGGCAGGGGAGATTGAAAATCTAGGTATGGTTTTATTAAGACAAAA
GAAATATTATTTATCTGAGGAAGAATGTACCCCAAAGCTTTCAAAATCAGATTATGCATTTTGAAATACCAAGTTTTGCA
TATACTCCCTTGAAAGTGAAGAAGTAATTAGCAATACATACATTATCCCTCCTGCTTACAGCAGTGTGATAACTTGTGTG
CATGTCTGTGCAACCGAGATTGTTGTCAACAACCAGCTAAGAATGTCTCTGATTGCCCTTACTGAAAAGGATCAGCTGAT
TTCGTTCCAAAATGGGACTCCTAAAAGTGTGTGCCAGCTTCCATGTGGAGGTCCTTGTGCACTTCAACTTATGGATTCGG
GTGGAGACCTCCTTTTCCTTGTATCTTTTAGGTTCAGTGATGCTTGTGCTGTTTGGGAAAAGAACTTTCAGGTTGCTGCT
AAATGGGAAAAAATTAGCTTAGTACTGATAGATGGAACTGGAAATGAACAAGTACTGCTACTTTTTCAGGACTCCTTAAA
TTCAGATTGCCTGAGTTCATTTAAAATAACAGATCTTGACAACATACACTATTCAAGTGAAACACTGGATTGCAATGAAG
ATGACTTATTTGAGGACAAACAAGATCATCGTTATTTGGTGATTCCAGCTCTGGAAAGGAGAGTGAAAGTTGGATTAACT
TCTATTCGGGAAGTACAGCAGCATCTCTTGCTTAAGGAAAAATTTATTTTAAAATCTTACAAAGCTTTAGTGAACCTGGT
TCAAGGGAAAGAAGATAGTACATCAAGTGCAGAGGTGGAATGTCTTGTTACTCTTTGTGGTAAAGAAGAAAATCCTGTCC
AAACTTTTGATGAAAAATCATCAGACAATTCTCAAGGTTCAGAACAGCTAGTAGAGAACGTACGATATCGTGTAATAGAT
GACAGCTTGGTTGTTGGAGTGAACAGCACATCTTCGAAACTGTCCCTGAACTGGGTGACTTTATTGTAGTTAATGGATCA
ACTCCATAGCTTCAGCTGTCCTCTTACTAAGTGTCAGAGTGATCAAGTTGAGTCG
ORF - retro_pvam_1125 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.0 % |
| Parental protein coverage: | 61.07 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTSKQAMSSKEQERLLCYNGEVLVFRLSKGSFSHKGPAEIPVLHVRRMVFDRGTRTFVQKSTGFFSIKEE |
| MTSKQAM.S..QERL.CYNGEVLVFRLSKG.F..KGPAEIP.LHVRRMVFDRGTRTFVQKSTGFF.IKEE | |
| Retrocopy | MTSKQAMLSNKQERLMCYNGEVLVFRLSKGNFADKGPAEIPILHVRRMVFDRGTRTFVQKSTGFFNIKEE |
| Parental | NSYLKILCCDCVSDFRTRMNLPCIVIQCNEKNNVFKYFLLFLHSTNKFEKRLSFRL-HEL-DGIRVFN-P |
| NSYLKI.CCDCVSDFRT.MNL.CIVIQCNEK..VFKYFLLFLHSTNKFEK.LSFRL.HEL.DGIRVFN.P | |
| Retrocopy | NSYLKIMCCDCVSDFRTGMNLLCIVIQCNEKSDVFKYFLLFLHSTNKFEKCLSFRLGHELKDGIRVFNGP |
| Parental | LILWKHV--FFYISSQTDKVITLSFYFLLV--VGEIGNLG--VLGQKK-CLSEEECTPKPSKSDYAFWNT |
| LILWKHV..FFYISSQ...VIT.S..F......GEI.NLG...L.QKK..LSEEECTPK.SKSDYAF.NT | |
| Retrocopy | LILWKHVKTFFYISSQAGNVITVSINFSSIEWAGEIENLGMVLLRQKKYYLSEEECTPKLSKSDYAF*NT |
| Parental | KFCVYSLESEELISDTYIIPPAYSSVITCVHVCATEI-VNSQLRMSLIALTRKDQLISFQNGTPKSVCQL |
| KFC.YSLESEE.IS.TYIIPPAYSSVITCVHVCATEI.VN.QLRMSLIALT.KDQLISFQNGTPKSVCQL | |
| Retrocopy | KFCIYSLESEEVISNTYIIPPAYSSVITCVHVCATEIVVNNQLRMSLIALTEKDQLISFQNGTPKSVCQL |
| Parental | PFADPRAVQLMDSGGDLFFLVSFRSSEVCAVWEKNFQVAAKWEKISSVLIDDFIGTGTDQVLLLFKDSLD |
| P...P.A.QLMDSGGDL.FLVSFR.S..CAVWEKNFQVAAKWEKIS.VLID...GTG..QVLLLF.DSL. | |
| Retrocopy | PCGGPCALQLMDSGGDLLFLVSFRFSDACAVWEKNFQVAAKWEKISLVLID---GTGNEQVLLLFQDSLN |
| Parental | SDCLSSFKITDLDNMNYSSETPDCNEDDLFEDKQDK---LVPALERRVKVGLASIQELQQHLLLKEKIIL |
| SDCLSSFKITDLDN..YSSET.DCNEDDLFEDKQD......PALERRVKVGL.SI.E.QQHLLLKEK.IL | |
| Retrocopy | SDCLSSFKITDLDNIHYSSETLDCNEDDLFEDKQDHRYLVIPALERRVKVGLTSIREVQQHLLLKEKFIL |
| Parental | KSSKAFMNLVQGKEDSTSSAEEKECLVTLCGKEENPVHTFDEKIPDNSQGSEQLVEKIWYRVIDDSLVVG |
| KS.KA..NLVQGKEDSTSSA.E.ECLVTLCGKEENPV.TFDEK..DNSQGSEQLVE...YRVIDDSLVVG | |
| Retrocopy | KSYKALVNLVQGKEDSTSSA-EVECLVTLCGKEENPVQTFDEKSSDNSQGSEQLVENVRYRVIDDSLVVG |
| Parental | VKTTSSSKLALNRVTLSLLMDQPQSSCSPLIKCQNRVIKS |
| V..T.SSKL.LN.VTL..LMDQ..S...PL.KCQ.....S | |
| Retrocopy | VNST-SSKLSLNWVTLL*LMDQLHSFSCPLTKCQSDQVES |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_1125 was not experimentally validated.
Retrocopy orthology:
Pteropus vampyrus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Otolemur garnettii | ENSOGAG00000008747 | 1 retrocopy | |
| Pteropus vampyrus | ENSPVAG00000000827 | 1 retrocopy |
retro_pvam_1125 ,
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