RetrogeneDB ID: | retro_amel_864 | ||
Retrocopy location | Organism: | Panda (Ailuropoda melanoleuca) | |
| Coordinates: | GL192690.1:879172..880444(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UFL1 | ||
| Ensembl ID: | ENSAMEG00000000542 | ||
| Aliases: | None | ||
| Description: | UFM1-specific ligase 1 [Source:HGNC Symbol;Acc:23039] |
Retrocopy-Parental alignment summary:
>retro_amel_864
ATGATAGATGAGGACTGTTTGGATCGGTTAGTAGAAGAGGTAAATGATAAATTGCAAGAAAGTGGTCAGGTCACCACATC
AGAACTGTGTAAAATCTGTGATCTTCCTGGAAGCTTTCTGACACAGGCACTAACTCAGTGACTAGGTAGAATTATTAATG
GACCCATCGATCTTAATAACAGAGCGGTAATATTTACTGAAGCTTTTGTAGCCTGACATAAAGCACACATCCATGGACTG
TTCAGTGCTTTTACCCGGCTACAGCAGTGAATTCTCTGATTTCAAAATATGGATGTCAAGAGAAGCTGCTCTACTCTGTG
CTTGAGGAACTTGTTAATAGTGGACGTTTACGAGGCAGTGTGGTTGGCGAGAGACAGGACACGGCGCTATTTTGTCCCTG
ACATTTACTCCAGACAGAGAGTACTTGGGTGGAGTCCTTTTGCAGGCAGAGTGGCCATCAAGAATTTGATGCTTTGTTCA
AACTTGGATTCCCAAGTGCTGTGAGCTACATAAAGAAAAGATCAAAGACTACACAACTCTGGTTTTTTGAAAGCAGCTTG
TGTTGGTCAAGGACCTGCGGATCGTGTGGAAGCCTCAGGACAGGAAGCCATCAGCTCTGGAACATGGTTAATGTCGCACC
TCTGTTGCCCAGTTCTTTATCAATTGAGATGCAGCGTCGCTTCCACAGGTAATGAGAGCATTCAGCAAGCTGACTTTAGC
GCTAGTCTTTAGCGACACTGTTGCAGTCAGCGGAAAACTTATCAATAACTGCACAGAACTGTTCAGTGACTTGATGCACC
AAAAAACTGAAAAGGATATGAAAAATAATCCTGTTCATTTAATCACTGAAGAAGATCTGGAACAGGTTTCCATTTTAGAA
AGCATTAATATAAGTAAAAAGGATGAAAAAGAACGAGGGAGAAAAGCAACAGAGGGCAGTGGAAGTGTGGGAGGAGATGG
TGGGGGCAATGGCAGAGAGTACAAAACTTAAAACATCTAGAAGAAAGGAAGAAAAGATAAAGACAGTGATGATGAGTCAT
CTCACACTGGTAAGAAGAAACCAGAGATCACTTTTATGTTCCAGGATAAGATTGAAGATTTTTTTTAAGAAAACACATAC
AAGATGCCCTTAAGTTTATTTCTGAACTTGCTGCTTACTTAATAAAAGCTCTTAATAAAATGCATCTCAAGGTGGTATGT
TCAGTGTTCATGACTTCAACTGCTTCTACCTCTGGAACTGGTAGAAAGCACACGATCAAGGACTTTCTAGAA
ORF - retro_amel_864 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.81 % |
| Parental protein coverage: | 53.91 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 7 |
Retrocopy - Parental Gene Alignment:
| Parental | LIDENYLDRLAEEVNDKLQESGQVTISELCKAYDLPGNFLTQALTQRLGRIINGHIDLDNRGVIFTEAFV |
| .IDE..LDRL.EEVNDKLQESGQVT.SELCK..DLPG.FLTQALTQ.LGRIING.IDL.NR.VIFTEAFV | |
| Retrocopy | MIDEDCLDRLVEEVNDKLQESGQVTTSELCKICDLPGSFLTQALTQ*LGRIINGPIDLNNRAVIFTEAFV |
| Parental | ARHKARIRGLFSAITR-PTAVNSLISKYGFQEQLLYSVLEELVNSGRLRGTVVGGRQDKAV-FVPDIYSR |
| A.HKA.I.GLFSA.TR..TAVNSLISKYG.QE.LLYSVLEELVNSGRLRG.VVG.RQD.A..FVPDIYSR | |
| Retrocopy | A*HKAHIHGLFSAFTR<ATAVNSLISKYGCQEKLLYSVLEELVNSGRLRGSVVGERQDTAL>FVPDIYSR |
| Parental | -TQSTWVDSFFRQNGYLEFDALSRLGIPDAVSYIKKRYKTTQLL-FLKAACVGQGLVDQVEASVEEAISS |
| .T.STWV.SF.RQ.G..EFDAL..LG.P.AVSYIKKR.KTTQL..FLKAACVGQG..D.VEAS..EAISS | |
| Retrocopy | <TESTWVESFCRQSGHQEFDALFKLGFPSAVSYIKKRSKTTQLW>FLKAACVGQGPADRVEASGQEAISS |
| Parental | GTW-VDIAPLLPSSLSVE-DAAMLLQQVMRAFSKQASAIVFSDTVVVSEKFINNCTELFGELMHQKAEKE |
| GTW.V..APLLPSSLS.E.DAA..L.QVMRAFSK...A.VFSDTV.VS.K.INNCTELF..LMHQK.EK. | |
| Retrocopy | GTW<VNVAPLLPSSLSIE<DAAS-LPQVMRAFSKLTLALVFSDTVAVSGKLINNCTELFSDLMHQKTEKD |
| Parental | MKNNPVHLITEEDLKQVSILESISTSKKDKKDERRRKATEGSGSVRGGGGGNAREYKIKKIKKKGRKEEE |
| MKNNPVHLITEEDL.QVSILESI..SKKD.K.ER.RKATEGSGSV.G.GGGN.REYK...I.KKGRK... | |
| Retrocopy | MKNNPVHLITEEDLEQVSILESINISKKDEK-ERGRKATEGSGSVGGDGGGNGREYKT*NI*KKGRKDKD |
| Parental | SDDESSHTGKKKPEITFMFQDEIEDVLRKHIQDAP-EEFISELAEYLIKPLNKTYLEVVRSVFMSSTSSA |
| SDDESSHTGKKKPEITFMFQD.IE..........P...FISELA.YLIK.LNK..L.VV.SVFM.ST.S. | |
| Retrocopy | SDDESSHTGKKKPEITFMFQDKIEXXXXENTYKMP<LKFISELAAYLIKALNKMHLKVVCSVFMTSTAST |
| Parental | SGTGRKRTIKDLQE |
| SGTGRK.TIKD..E | |
| Retrocopy | SGTGRKHTIKDFLE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_864 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_864 was not experimentally validated.
Retrocopy orthology:
Ailuropoda melanoleuca 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000000542 | 1 retrocopy |
retro_amel_864 ,
|