RetrogeneDB ID: retro_nleu_1745

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397307.1:150680..152122(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: RNF145
• Ensembl ID: ENSNLEG00000004241
• Aliases: None
• Description: None

Sequence

>retro_nleu_1745
GGTTATATCTTAAGTGTGGTGCTGCTAACATTGCCCAGGCAGCAACTGGTTCAGCTTTATCTATATTTTTTGACTGCTCT
GCTCCTCTATGCTGGACATCAAATTTCCAGGGACTACGTTCGGAGTGAACTGGAGTTTGCCTATGAGGGACCAATGTATT
TAGAACCTATCTCCATGAATCGGTTTACCGCAGCCTTAATCGGTCAGTTGGTGGTGTGTACTTTATGCTCCTGTGTCATG
AAAACAAAGCAGATTTGGCTGTTTTCAGCTCACGTGCTTCCTCTACTGGCACGACTCTACCTTGTTCCTTTGGAGACAAT
TGTTATCATCAATAAATTTGCTATGATTTTTACTGGATTGGAAGTTCTTTATTTTCTTGGGTCTAATCTTTTGCTACCTT
ATAACCTTGCTAAATCTGCATACAGAGAATTGGTTCAGGTAGTGGAGGTGAATGGCCTTCTCGCCTTGGGAATGTCCCTG
TGGAATCAACTGGTAGTCCCTGTTCTTTTCATGGTGTTCTGGCTCATCTTATTTGCTCTTCAGATTTACTCCTATTTCAG
TACTCGAGATCAGCCTGCATCATGTGAGAGGCTTCTTTTCCTTTTTCTGACAAGTATTGCAGAATGCTGCAGCTCTCCTT
ACTCTCTTTTGGGTTTGATCTTCACGGTTTCTTTTGTTGCCTTGGGCGTTCTCACACTCTGCAAGTTTTACTTGCAGGGT
TATCGAGCTTTCATGAATGATCCTGCCATGAATCGGGGCATGACAGAAGGAGTAACGCTGTTAATCCTGGCAGTGCAGAC
TGGGCTGATAGAACTGCAGGTTGTTCATCGGGCATTCCTGCCCAGTATTACCCTTTTCATTGTCGTAGCTTCTATCCTAC
AGTCTATGTTAGAAACTGCAGATCCTATTGTTTTGGCACTGGGAGCAACTAGAGACAAGAGCTTGTGGAAACACTTCCCT
GCCGTAAGCCTTTGTTTATTTTTATTGGTATTCCCTGCTCATGTGGCTTATATGATTTGCCAGTTTTTCCACATGGATTT
TTGGCTTCTTGTCATTATTTCCAGCAGCATTCTTACCTCTCTTCAGGTTCTGGGAACACTTTGTATTTATGTCTGATTTA
TGGTTGAGGAATTCAGAAAAGAGCCCGTGGAAAACATGGATGATGTCATCTGCTATGTGAATGGCACTTACCGCCTGCTG
GAGTTTCTTGTGGCCCCTGTGTGGTGGCCTGTGGCGTCTCGGAGACCGTCTTTGGAGAATGGACAGTGATGGGCTCAGTG
ATCATCTTCATTCATTCCTACTATAACGTGTGGCTTCGGGCCCAGCTGGGGTGGAAGAGCTTTCTTCTCCACAGGGATGT
TGTGAATAACATTAAATCGTTACCCATTGCTATGAAAGAGCAGCTTGAGAAACACAATGATATTTGTGCCATCTGTTATC
AG

Alignment

ORF - retro_nleu_1745 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.57 %
• Parental protein coverage: 69.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GYILSVVLLTLPRQHLVQLYLYFLTALLLYAGHQISRDYVRSELEFAYEGPMYLEPLSMNRFTTALIGQL
          GYILSVVLLTLPRQ.LVQLYLYFLTALLLYAGHQISRDYVRSELEFAYEGPMYLEP.SMNRFT.ALIGQL
Retrocopy GYILSVVLLTLPRQQLVQLYLYFLTALLLYAGHQISRDYVRSELEFAYEGPMYLEPISMNRFTAALIGQL

Parental  VVCTLCSCVMKTKQIWLFSAHMLPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSNLLVPYNLAKSA
          VVCTLCSCVMKTKQIWLFSAH.LPLLARL.LVPLETIVIINKFAMIFTGLEVLYFLGSNLL.PYNLAKSA
Retrocopy VVCTLCSCVMKTKQIWLFSAHVLPLLARLYLVPLETIVIINKFAMIFTGLEVLYFLGSNLLLPYNLAKSA

Parental  YRELVQVVEVYGLLALGMSLWNQLVVPVLFMVFWLVLFALQIYSYFSTRDQPASRERLLFLFLTSIAECC
          YRELVQVVEV.GLLALGMSLWNQLVVPVLFMVFWL.LFALQIYSYFSTRDQPAS.ERLLFLFLTSIAECC
Retrocopy YRELVQVVEVNGLLALGMSLWNQLVVPVLFMVFWLILFALQIYSYFSTRDQPASCERLLFLFLTSIAECC

Parental  STPYSLLGLVFTVSFVALGVLTLCKFYLQGYRAFMNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAFL
          S.PYSLLGL.FTVSFVALGVLTLCKFYLQGYRAFMNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAFL
Retrocopy SSPYSLLGLIFTVSFVALGVLTLCKFYLQGYRAFMNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAFL

Parental  LSIILFIVVASILQSMLEIADPIVLALGASRDKSLWKHFRAVSLCLFLLVFPAYMAYMICQFFHMDFWLL
          .SI.LFIVVASILQSMLE.ADPIVLALGA.RDKSLWKHF.AVSLCLFLLVFPA..AYMICQFFHMDFWLL
Retrocopy PSITLFIVVASILQSMLETADPIVLALGATRDKSLWKHFPAVSLCLFLLVFPAHVAYMICQFFHMDFWLL

Parental  IIISSSILTSLQVLGTLFIYVLFMVEEFRKEPVENMDDVIYYVNGTYRLLEFLVA-LCVVAYGVSETIFG
          .IISSSILTSLQVLGTL.IYV.FMVEEFRKEPVENMDDVI.YVNGTYRLLEFLVA..CVVA.GVSET.FG
Retrocopy VIISSSILTSLQVLGTLCIYV*FMVEEFRKEPVENMDDVICYVNGTYRLLEFLVA<PCVVACGVSETVFG

Parental  EWTVMGSMIIFIHSYYNVWLRAQLGWKSFLLRRDAVNKIKSLPIATKEQLEKHNDICAICYQ
          EWTVMGS.IIFIHSYYNVWLRAQLGWKSFLL.RD.VN.IKSLPIA.KEQLEKHNDICAICYQ
Retrocopy EWTVMGSVIIFIHSYYNVWLRAQLGWKSFLLHRDVVNNIKSLPIAMKEQLEKHNDICAICYQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq

Nomascus leucogenys was not studied using ChIP-Seq data.

EST

Nomascus leucogenys was not studied using EST data.

TSS

Nomascus leucogenys was not studied using FANTOM5 data.

Lab

retro_nleu_1745 was not experimentally validated.

Homology

Retrocopy orthology:

Nomascus leucogenys 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.

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000145860	2 retrocopies	retro_hsap_1532, retro_hsap_1538,
Gorilla gorilla	ENSGGOG00000023385	1 retrocopy	retro_ggor_1171,
Nomascus leucogenys	ENSNLEG00000004241	1 retrocopy	retro_nleu_1745 ,