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 symbol: LRRC4B
• Ensembl ID: ENSOGAG00000002426
• Aliases: None
• Description: leucine rich repeat containing 4B [Source:HGNC Symbol;Acc:25042]

Sequence

>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

Alignment

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_171 was not experimentally validated.

Homology

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	retro_cjac_308,
Otolemur garnettii	ENSOGAG00000002426	1 retrocopy	retro_ogar_171 ,