RetrogeneDB ID: retro_nleu_2532

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397368.1:2149329..2150638(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RALBP1
• Ensembl ID: ENSNLEG00000006950
• Aliases: None
• Description: None

Sequence

>retro_nleu_2532
GTGAATTACGTAGAGAAGTATGGCATGAAGTGCGAAGGCATCTACAAAGTATCAGGAATTAAATCAAAGGTGGATGAGCT
AAAAGCAGCCTATGACCAGGAGGAGTCTACAAACTTGGAAGAATATGAGCCTAACACTGTAGCCAGTTTGCAGAAGCAGT
ATTTGCGAGACCTTCCAGAGAATTTGCTTACCAAAGAGCTTATGCCCAGATTTGAAGAGGCTTATGGGAGGACCACGGAG
ACTGAGAAAGTGCAGGAATTCCAGCGTTTACTCAAAGAACTGCCAGAAGGTAACTATCTTCTGATTTCTTGGCTCATTGT
GCACATGGACCATGTCATCACAAAGGAACTGGAAGCAAAAATGAATATACAGAACATTTATATAGTGCTCAGCCCAACTG
TGCAGATCAGCAATCTAGTCCTGTATGTGTTCTTCACACATGTGCAAGAACTCTTTGGAAATGTGGTTCTAAAGCAAGTG
ACGAAACCTTGGCGATGGTCTAACATGGCCACGATGCCCATGCTGCCAGAGACCCAGGCAGGCATCAAGGAGGAGATCAG
GAGACAGGAGTTGCTTTTGAATTGTTTACATCAAGATCTGCAGGGTGGGATAAAGGATTTGTCTGAAGAAGTAAGATTAT
GGGAAGTACAAAGAATTTTGACAGGTCTCAAAAGAAAACTGAGAGAAGCTAAAAGACAGGGGTGTGAAACCAAGATTGCA
CAAGAGATAGCCAGTCTTTCAAAAGAGGCCGTTTCCAAAAAAAAGATGAATGAAAATGAAGAAGTTATAAATATTCTCCT
TGTTCAGGAGAAAGAGATCCTGACTAAACAGGAGGAGCTCCTGGCCATGGAGCAGTTTCTGCGCCAGCAGATTGCCTCAG
AAAAAGAAGAGATTGAATGCCTCAGAGCCGAGATTGCGGAAATTCAGAGTCGCCAACAGCAGGGCCTAAGCGAGACTGAG
AAGTACTCCTCCGAGAGCGAGAGAGAGGATGAGGAGGAGCTGCAGATCATTCTGGAAGATTTACAGAGACACAACGAAGA
GCTGGAAATAAAGAACAACCATTTGAATCAAGCAATTCACAAGGAGAGTGAGGCCATCATTGAGCTGTGCATGCAGCTCT
GGCTGCTCCAGATGCAGCCAGACAAGGCCAAGCAGCAGGCAGGAGGCCGAGGAGCCCGACTCGCGTGGGGATGCCATCCA
GCCACCCAAGAATGGCATCCTCGAGCCAATAGCAGCTAAATAGCCACCGGAGGCAGGCAAGAAGCCGGCAAAGCCATCGT
CCAGCAGGGACAGGAAGGAGACGTCCATC

Alignment

ORF - retro_nleu_2532 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.91 %
• Parental protein coverage: 67.02 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IDYVEKYGMKCEGIYRVSGIKSKVDELKAAYDREESTNLEDYEPNTVASLLKQYLRDLPENLLTKELMPR
          ..YVEKYGMKCEGIY.VSGIKSKVDELKAAYD.EESTNLE.YEPNTVASL.KQYLRDLPENLLTKELMPR
Retrocopy VNYVEKYGMKCEGIYKVSGIKSKVDELKAAYDQEESTNLEEYEPNTVASLQKQYLRDLPENLLTKELMPR

Parental  FEEACGRTTETEKVQEFQRLLKELPECNYLLISWLIVHMDHVIAKELETKMNIQNISIVLSPTVQISNRV
          FEEA.GRTTETEKVQEFQRLLKELPE.NYLLISWLIVHMDHVI.KELE.KMNIQNI.IVLSPTVQISN.V
Retrocopy FEEAYGRTTETEKVQEFQRLLKELPEGNYLLISWLIVHMDHVITKELEAKMNIQNIYIVLSPTVQISNLV

Parental  LYVFFTHVQELFGNVVLKQVTKPLRWSNMATMPTLPETQAGIKEEIRRQEFLLNCLHRDLQGGIKDLSKE
          LYVFFTHVQELFGNVVLKQVTKP.RWSNMATMP.LPETQAGIKEEIRRQE.LLNCLH.DLQGGIKDLS.E
Retrocopy LYVFFTHVQELFGNVVLKQVTKPWRWSNMATMPMLPETQAGIKEEIRRQELLLNCLHQDLQGGIKDLSEE

Parental  ERLWEVQRILTALKRKLREAKRQECETKIAQEIASLSKEDVSKEEMNENEEVINILLAQENEILTEQEEL
          .RLWEVQRILT.LKRKLREAKRQ.CETKIAQEIASLSKE.VS...MNENEEVINILL.QE.EILT.QEEL
Retrocopy VRLWEVQRILTGLKRKLREAKRQGCETKIAQEIASLSKEAVSXXXMNENEEVINILLVQEKEILTKQEEL

Parental  LAMEQFLRRQIASEKEEIERLRAEIAEIQSRQQHGRSETEEYSSESESESEDEEELQIILEDLQRQNEEL
          LAMEQFLR.QIASEKEEIE.LRAEIAEIQSRQQ.G.SETE.YS..SESE.EDEEELQIILEDLQR.NEEL
Retrocopy LAMEQFLRQQIASEKEEIECLRAEIAEIQSRQQQGLSETEKYS--SESEREDEEELQIILEDLQRHNEEL

Parental  EIKNNHLNQAIHEEREAIIELRVQLRLLQMQRAKAEQQA-QEDEEPEWRGGAVQPPRDGVLEPKAAKEQP
          EIKNNHLNQAIH.E.EAIIEL..QL.LLQMQ..KA.QQA....E.P..RG.A.QPP..G.LEP.AAK..P
Retrocopy EIKNNHLNQAIHKESEAIIELCMQLWLLQMQPDKAKQQA>EAEE-PDSRGDAIQPPKNGILEPIAAK*PP

Parental  KAGKEPAKPSPSRDRKETSI
          .AGK.PAKPS.SRDRKETSI
Retrocopy EAGKKPAKPSSSRDRKETSI

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_2532 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 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000017797	2 retrocopies	retro_hsap_2129, retro_hsap_2734,
Gorilla gorilla	ENSGGOG00000023120	1 retrocopy	retro_ggor_1903,
Macaca mulatta	ENSMMUG00000019521	2 retrocopies	retro_mmul_1000, retro_mmul_1528,
Nomascus leucogenys	ENSNLEG00000006950	1 retrocopy	retro_nleu_2532 ,
Pongo abelii	ENSPPYG00000009010	2 retrocopies	retro_pabe_1922, retro_pabe_2273,
Pan troglodytes	ENSPTRG00000009859	2 retrocopies	retro_ptro_1558, retro_ptro_1848,