RetrogeneDB ID: | retro_ogar_171 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873520.1:65920418..65922341(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOGAG00000001283 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LRRC4B | ||
| Ensembl ID: | ENSOGAG00000002426 | ||
| Aliases: | None | ||
| Description: | leucine rich repeat containing 4B [Source:HGNC Symbol;Acc:25042] |
Retrocopy-Parental alignment summary:
>retro_ogar_171
ATGTTGAACAAGATGACCTTACATCCACAGCAGATAATGATAGGTCCTAGGTTTAACAGGGCCCTATTTGACCCCCTGCT
TGTGGTGCTGCTGGCTCTTCAGCTTCTGGTGGTGGCTGGTTTGGTGCGGGCTCAGACCTGCCCTTCTGTGTGCTCCTGCA
GCAACCAGTTCAGCAAGGTGATTTGTGTTCGCAAGAACCTGCGTGAGGTTCCAGATGGCATCTCCACCAACACACGGCTG
CTGAACCTTCATGAGAACCAAATCCAGATCATCAAAGTGAACAGCTTCAAGCACTTGAGGCACCTGGAAATCCTACAATT
GAGTAGGAACCATATTAGAACCATTGAAATTGGGGCCTTCAATGGTCTGGCCAACCTCAACACTCTGGAACTCTTTGACA
ATCGTCTTACTACCATCCCAAATGGGGCTTTTGTATATTTGTCTAAACTGAAGGAGCTCTGGTTGCGAAACAACCCCATT
GAAAGCATCCCTTCTTATGCTTTTAACAGAATTCCTTCTTTGCGCCGATTAGACTTAGGGGAATTGAAAAGACTTTCGTA
CATCTCAGAAGGTGCCTTTGAAGGTCTGTCCAACTTGAGGTATTTGAACCTTGCCATGTGCAACCTCCGGGAAATCCCTA
ACCTCACACCACTCATAAAACTAGATGAGTTAGATCTTTCTGGGAATCATTTATCTGCCATTAGGCCTGGTTCTTTCCAG
GGGTTGATGCACCTTCAAAAACTGTGGATGATACAGTCCCAGATTCAAGTGATTGAAAGGAACGCCTTTGATAACCTTCA
ATCACTAGTGGAGATCAACCTGGCACACAACAATCTAACGTTACTGCCTCATGACCTCTTCACGCCCTTGCACCATCTAG
AGCGGATACACTTACATCACAACCCTTGGAACTGTAACTGTGACATACTGTGGCTCAGCTGGTGGATAAAAGACATGGCC
CCCTCCAATACAGCTTGTTGTGCCCGGTGTAACACTCCTCCCAATCTAAAAGGGAGGTACATTGGGGAGCTTGACCAGAA
TTATTTCACATGCTATGCCCCAGTGATCGTGGAGCCCCCTGCAGACCTCAATGTCACTGAAGGCATGGCAGCTGAGCTGA
AATGTCGAGCCTCTACATCACTGACGTCTGTATCTTGGATTACTCCAAATGGAACAGTTATGACACATGGGGCATACAAA
GTGCGGATAGCTGTGCTCAGCGATGGTACATTAAATTTCACGAATGTAACCGTGCAAGATACAGGCATGTACACATGTAT
GGTGAGTAATTCTGTTGGAAACACTACTGCTTCAGCCACCCTGAATGTTACTGCAGCAACCACTACTCCCTTCTCTTACT
TTTCAACCGTCACAGTAGAGACTATGGAACCTTCTCAGGATGAGGCGCGGACCACAGATAACAATGTGGGTCCCACTCCG
GTGATCGACTGGGAGACCACCAATGTGACCACCTCTCTTACGCCACAGAGCACAAGGTCCACAGAAAAGACATTCACCAT
CCCAGTGACTGATATAAATAGTGGGATCCCAGGAATCGATGAGGTCATGAAGACGACCAAAATCATCATTGGGTGTTTTG
TGGCCATCACACTCATGGCAGCAGTGATGCTGGTGATCTTCTACAAGATGAGGAAGCAGCACCATCGGCAAAACCATCAC
GCCCCAACAAGGACTGTTGAAATCATTAATGTGGATGATGAGATTACTGGGGACACGCCCATGGAGAGCCACCTGCCCAT
GCCTGCTATCGAGCATGAGCACCTGAATCACTATAACTCTTACAAATCTCCCTTCAACCACACAACAACAGTTAACACAA
TAAATTCAATACACAGTTCAGTGCATGAACCGTTATTGATCCGAATGAACTCTAAAGACAATGTACAAGAGACTCAAATC
TAA
ORF - retro_ogar_171 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.54 % |
| Parental protein coverage: | 63.17 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ATSCPAACSCSNQASRVICTRRELAEVPASIPVNTRYLNLQENGIQVIRTDTFKHLRHLEILQLSKNLVR |
| A..CP..CSCSNQ.S.VIC.R..L.EVP..I..NTR.LNL.EN.IQ.I....FKHLRHLEILQLS.N..R | |
| Retrocopy | AQTCPSVCSCSNQFSKVICVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR |
| Parental | KIEVGAFNGLPSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELK |
| .IE.GAFNGL..LNTLELFDNRLTT.P..AF.YLSKL.ELWLRNNPIESIPSYAFNR.PSLRRLDLGELK | |
| Retrocopy | TIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELK |
| Parental | RLEYISEAAFEGLVNLRYLNLGMCNLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHA |
| RL.YISE.AFEGL.NLRYLNL.MCNL..IPNLT.L..L.EL.LSGN.L..IRPGSFQGL..L.KLW.... | |
| Retrocopy | RLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS |
| Parental | QVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHLNHNPWHCNCDVLWLSWWLKETVPSN |
| Q...IERNAFD.L.SL.E.NL.HNNL..LPHDLFTPLH.LER.HL.HNPW.CNCD.LWLSWW.K...PSN | |
| Retrocopy | QIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWNCNCDILWLSWWIKDMAPSN |
| Parental | TTCCARCHAPAGLKGRYIGELDQSHFTCYAPVIVEPPTDLNVTEGMAAELKCRTGTSMTSVNWLTPNGTL |
| T.CCARC..P..LKGRYIGELDQ..FTCYAPVIVEPP.DLNVTEGMAAELKCR..TS.TSV.W.TPNGT. | |
| Retrocopy | TACCARCNTPPNLKGRYIGELDQNYFTCYAPVIVEPPADLNVTEGMAAELKCRASTSLTSVSWITPNGTV |
| Parental | MTHGSYRVRISVLHDGTLNFTNVTVQDTGQYTCMVTNSAGNTTASATLNVSGVGGGSGGYTYFTTVTVET |
| MTHG.Y.VRI.VL.DGTLNFTNVTVQDTG.YTCMV.NS.GNTTASATLNV...........YF.TVTVET | |
| Retrocopy | MTHGAYKVRIAVLSDGTLNFTNVTVQDTGMYTCMVSNSVGNTTASATLNVT--AATTTPFSYFSTVTVET |
| Parental | LETQPGE |
| .E....E | |
| Retrocopy | MEPSQDE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_171 was not experimentally validated.
Retrocopy orthology:
Otolemur garnettii 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000017224 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000002426 | 1 retrocopy |
retro_ogar_171 ,
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