RetrogeneDB ID: | retro_pvam_1428 | ||
Retrocopy location | Organism: | Megabat (Pteropus vampyrus) | |
| Coordinates: | scaffold_8376:68851..69679(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CALR | ||
| Ensembl ID: | ENSPVAG00000014715 | ||
| Aliases: | None | ||
| Description: | calreticulin [Source:HGNC Symbol;Acc:1455] |
Retrocopy-Parental alignment summary:
>retro_pvam_1428
ATACCACTGCTGCTCTGCCTTCCTTGCCTGGTTGCTGTGGAACCCTTTGTCTACTTCAAAGAACAGTTTCTGGACGGAGA
CAGGTGGCCTAACTGCTGGTTTGAATACAAAAGTAAGTCGGATTTTGGAAAATTTCTTCTCAGTGCCAGCAAGTTCTATG
GTGACTTGAACAAAGATAAAGGGCTGCAGACAAGCCAGGATGCCCACTTCTGTGCCCTGTCAGCCAGATTCAAGCCCTTC
AACAACAAGGACCAGACACTGATGGTGCAGTTCACTGTGAAACACGAGCAAAACATTGACTGTAGGGGTGAGAATGTGAA
GCTATTTCCAGACGGTTTGGAGCAGACAAATATGCATGGAGACTCCAAATACAATATCATGTTTGGCCCTAACATCTGTG
CTCTGGCACTAAGAAGATTCATGTCATCCTCAACAACAAGGGCAAGAATGTGCTGATCAATAAAGACATCTGTTGCAAGG
ATGATGAATTCACACACCTGTACACACTGATTGTGCGGCCCAATAACACCTAGAAGGTGAAGATTGACAACAGCCATGTA
GAGTCCTGCTCCCTGGAGGACAACTGGGACTTCCTGCCACTCAAGAAGATAAAGGAGCCTGATGCTTCAAAGCCAGAAGA
CTTGGGTAAGCAGACCAAGACTGACGACGCCACAGTCTCCAAACCTGAGGACTCAGACAAACTCGAGCACATCCCTGACC
CCAATGCTAAGAACCTGAGGACTGGATGAAGAGATAGATGGAAAGTGGGAACCACCAATCATTCAGAACTCGGAATACAA
GGGTGAGTGGAAGCCCTGCCAGATAGAC
ORF - retro_pvam_1428 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.86 % |
| Parental protein coverage: | 66.43 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VPLLLGLLGLAAAEPVVYFKEQFLDGDGWTNRWIESKHKSDFGKFVLSAGKFYGDLDKDKGLQTSQDARF |
| .PLLL.L..L.A.EP.VYFKEQFLDGD.W.N.W.E.K.KSDFGKF.LSA.KFYGDL.KDKGLQTSQDA.F | |
| Retrocopy | IPLLLCLPCLVAVEPFVYFKEQFLDGDRWPNCWFEYKSKSDFGKFLLSASKFYGDLNKDKGLQTSQDAHF |
| Parental | YALSARFEPFSNKDQTLVVQFTVKHEQNIDCGGGYVKLFPDGLDQTDMHGDSEYNIMFGPDICG-PGTKK |
| .ALSARF.PF.NKDQTL.VQFTVKHEQNIDC.G..VKLFPDGL.QT.MHGDS.YNIMFGP.IC...GTKK | |
| Retrocopy | CALSARFKPFNNKDQTLMVQFTVKHEQNIDCRGENVKLFPDGLEQTNMHGDSKYNIMFGPNICA<SGTKK |
| Parental | VHVIFNYKGKNVLINKDIRCKDDEFTHLYTLIVRPDNTYEVKIDNSQVESGSLEDDWDFLPPKKIKDPDA |
| .HVI.N.KGKNVLINKDI.CKDDEFTHLYTLIVRP.NT..VKIDNS.VES.SLED.WDFLP.KKIK.PDA | |
| Retrocopy | IHVILNNKGKNVLINKDICCKDDEFTHLYTLIVRPNNT*KVKIDNSHVESCSLEDNWDFLPLKKIKEPDA |
| Parental | SKPEDWDERAKIDDPTDSKPEDWDKPEHIPDPDAK-KPEDW-DEEMDGEWEPPVIQNPEYKGEWKPRQID |
| SKPED.....K.DD.T.SKPED.DK.EHIPDP.AK..PEDW.DEE.DG.WEPP.IQN.EYKGEWKP.QID | |
| Retrocopy | SKPEDLGKQTKTDDATVSKPEDSDKLEHIPDPNAK<EPEDW<DEEIDGKWEPPIIQNSEYKGEWKPCQID |
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_1428 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 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000012776 | 1 retrocopy | |
| Pteropus vampyrus | ENSPVAG00000014715 | 2 retrocopies |
retro_pvam_1071, retro_pvam_1428 ,
|