RetrogeneDB ID: | retro_chof_2094 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_48566:3319..4699(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FAM161A | ||
| Ensembl ID: | ENSCHOG00000008007 | ||
| Aliases: | None | ||
| Description: | family with sequence similarity 161, member A [Source:HGNC Symbol;Acc:25808] |
Retrocopy-Parental alignment summary:
>retro_chof_2094
GAGGGAAACAAAATGATGGCCTGTGGTAGGGAGCTCAGCAACAACACTTGGACAGACTTTTATGTTGAAGATTATATTCA
GCATGAAGATCCTGACTTCTCTGCAGCTGAAAAAACAAGGAAGAAACAGAAAGAGTGGGTGCCAAAGATTGCAGTACCAG
AGCCATTTCAAATGATGATTACAGAAGAGAAGAAAAAAGAAGAGAAAATGAAATCCAAGTCAGATACTGAAATGGTGAAA
TGGCACATAAACTTTTCAAAAAATAAGATGGTGCAGAGCATCAGAAGAAATTTCAAGTCAATCCAGTTCCTGCATATGTC
TTTCTCTCCCTTTTTCATGATATAGTCAAGCAAAATGAAGAACTGAGGAGGTATATGAAGGAGAAAAACAAAGAAGCTCT
TTCGGCCTCATAAAAGCCATTTAAGTTTATTGCAAGGGAGAAACAGAAGCAAGAAGTCTGGGAAAAGCAGCTGATCGATT
TTTTAAAGTTGAAAAGAAATCAAATTGAATTAAAGCCAAACCTATATCTCCATGTAATTATGGGTCAAATTCCAGTGACA
GGTTAAAGAAGAAATCTATAGAAACATTAAGAAACAACTGAGAGCCCAAGAATTTCTACAGAATTTGTCCCCTCTGTCTC
ATAGACCAGTTCATAGAACTCTTGCTACAAGGAAACCCAAAAGTACTGAAGAGGCTGAGAAATGGAAGGATAAACACAAG
GGCAGGTACCAGACTCCTTATTTTGAAGACCTTCCTGAGAAATATCAGAAACACCTCTCAGATCATAGGTATCCAAAACT
CCTAACAGTTTGAAAACCATTTGGTCTTACCACATCCCCACAGGCATCCTCTAAAAGAGGGAAAATTTTGGCAGACATGG
AAGCAGATGAAAATTTAAAAGAAGCATGTTGGCCTTATCTGTCTCCAATGCATAAGTTACCAGTAAAAGGTGCAAGTGCA
AAGCCTGTGCTTTGTGACTGCATCCCTCCAAGGCCTATGGAATCTTCCAGAGGAAGGAGATCACTTGAGGAAAAGAAAAT
GTTGGAAGAAGAGAGAAATCAGATGTTATCTAAGCAGAAGCAAAGAATGAAAGAATTGCAGAAACTCCTGACAACCTGGG
CTAAGACTTATGGCTCACACCAGAGTTTAGCTCAAATGTCTAAATCCAGAGTAAAATCTCTCAGAAAGAGTGAAAAGGAA
AGGAAGAGAGAATACCACCAAGAACTAGAAGAAAAATTTAAGAAGAGTCCAATACTATGTGAAAGAGTTGCTCAGAAAAA
TGTGAGAATGGCAGCAGAAAGGCACTATTCTAACACCTTAAAAGCACTAGGAATGTGTGATGAGTTTATTTTAAAGAAAG
GCCAAACTGGAAAAATATTT
ORF - retro_chof_2094 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.25 % |
| Parental protein coverage: | 71.43 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | EENKMMAYARELINNMWTDFSVEDYIQHEDSDFPAVEKIRKKLKEWVPKITVPEPFQMMIREEKKKEEKM |
| E.NKMMA..REL.NN.WTDF.VEDYIQHED.DF.A.EK.RKK.KEWVPKI.VPEPFQMMI.......... | |
| Retrocopy | EGNKMMACGRELSNNTWTDFYVEDYIQHEDPDFSAAEKTRKKQKEWVPKIAVPEPFQMMIXXXXXXXXXX |
| Parental | KS-SDIEMAP---NLFKKQDDPEYQKKFQA-SPLLTYVFLPLCHDTVKQNEERRKYMKEKSKDALLVSQK |
| KS.SD.EM.....N..K..........F....P...YVFL.L.HD.VKQNEE.R.YMKEK.K.AL..S.K | |
| Retrocopy | KSKSDTEMVKWHINFSKNKMVQSIRRNFKS<NPVPAYVFLSLFHDIVKQNEELRRYMKEKNKEALSAS*K |
| Parental | PLKFTAREEQKQAAWGKQLRDFLKSK-KKPNRFKARPIPRSTYGSNSSDGL-KEEEIYRNIRKQLRAQEL |
| P.KF.ARE.QKQ..W.KQL.DFLK.K.KK.N..KA.PI....YGSNSSD.L.KEE.IYRNI.KQLRAQE. | |
| Retrocopy | PFKFIAREKQKQEVWEKQLIDFLKLK<KKSN*IKAKPISPCNYGSNSSDRL<KEE-IYRNIKKQLRAQEF |
| Parental | LQNSSPLPRRPVHRSLATRRPQSPEEAEKWKGKHKVRYQTPDLEDLPEKYQKYLSDHRYSKLLTVCEPFD |
| LQN.SPL..RPVHR.LATR.P.S.EEAEKWK.KHK.RYQTP..EDLPEKYQK.LSDHRY.KLLTV..PF. | |
| Retrocopy | LQNLSPLSHRPVHRTLATRKPKSTEEAEKWKDKHKGRYQTPYFEDLPEKYQKHLSDHRYPKLLTV*KPFG |
| Parental | LTASPHASSKRGKILADMEADEENLKETHWPYLSPRHKLPVKGASAKPVPCDCNIPRPMESSKGREQAIR |
| LT.SP.ASSKRGKILADMEAD.ENLKE..WPYLSP.HKLPVKGASAKPV.CDC..PRPMESS.GR....R | |
| Retrocopy | LTTSPQASSKRGKILADMEAD-ENLKEACWPYLSPMHKLPVKGASAKPVLCDCIPPRPMESSRGR----R |
| Parental | RSLEEKKMLEEENRMLSKQKERMKELQKLLTTRAK-YDSHQSLAQMPKSRVKSLRKSEKERMREYRQELE |
| ...E.K...EE.N.MLSKQK.RMKELQKLLTT.AK.Y.SHQSLAQM.KSRVKSLRKSEKER.REY.QELE | |
| Retrocopy | SLEEKKMLEEERNQMLSKQKQRMKELQKLLTTWAKTYGSHQSLAQMSKSRVKSLRKSEKERKREYHQELE |
| Parental | EREEKLKKRPLLFERVAQKNARMAAERHYSNTLKALGMCDEFVLKKGQSGKIF |
| E...K.KK.P.L.ERVAQKN.RMAAERHYSNTLKALGMCDEF.LKKGQ.GKIF | |
| Retrocopy | E---KFKKSPILCERVAQKNVRMAAERHYSNTLKALGMCDEFILKKGQTGKIF |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_2094 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000008007 | 1 retrocopy |
retro_chof_2094 ,
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