RetrogeneDB ID: retro_nleu_311

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397263.1:21150385..21151287(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT73
• Ensembl ID: ENSNLEG00000026579
• Aliases: None
• Description: None

Sequence

>retro_nleu_311
ACATCAACAACCTTAGGCGGCATGGAGACTCTGGGCCAGAAGAAGCTGAAGCTGGAGGCAGAGCTTGGCAACATGCAGGA
CCCGGTGGAGGACTTTAAGAACAAGTATGAGGATGAGATCAATAAGCACACAGAGATGGAGAATGAATTTGTCCTCATCA
AGAAGGATGTGGATGAAGCTTACATGAACAAGGTAGAGCTGGAGTCTCACCTAGAAGGGCTGACTGACGAAATCAACTTC
CTCAGGCAGCTGTATAAAGAGATCGGGAGCTGCACTCCCACATCTTGGACACATCTGTGGTGCTGTCCATGGACAACAGC
TGCTCCCTGGACATGGACAGCATCATCGCTGAGGTCAAGGCACAGTATGAGGAGACTGCCAACCAGAGCCAGGCTGAGGC
CAAGAGCATGTACCAGATCAAGTATGAGGAGCTGCAGATGCTGGCTGGGAAGCACAGCGATGACCTGCGGCATACAAAGA
CTGAGATCTCCGAGATGAACCAGAACATCAGCTGGCTCCAGGCTGAGACCGAGGGTCTCAAAGGCCAGAGGGCTTCCCTG
GAGGCCGCCGTTGCAGATGCTGAGCAGCATGGGGAGCTGGCCATTAAGGATGCCAATGCCAAGCTGTCCGAGCTGGAGGC
TGCCCTGCAGTGGGCCAAGCAGGACATGGCATGGCAGTTGCATGAGTACCAGGAGCTGATGAACATCAAGCTGGCCCTGG
ACATGGAGATCGCCACCTACAGGAAGCTGCTGGAGGGCAAGGAGAGCCGGCTGGAGTCTGGGATGCAGAACATAAGTATA
CATACGAAGACCACCAGCAGCTATGCAGGTGGTCTGAGCTTGGCCTATGGGGGCCTCACAAGCCCCGGCCTCAGCTACGG
CCTGGGCTCCAGCTCCTTCAGC

Alignment

ORF - retro_nleu_311 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.47 %
• Parental protein coverage: 55.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TSNLRKQLETLSGDRVRLDSELRSVREVVEDYKKRYEEEINKRTTAENEFVVLKKDVDAAYMNKVELQAK
          TS......ETL......L..EL......VED.K..YE.EINK.T..ENEFV..KKDVD.AYMNKVEL...
Retrocopy TSTTLGGMETLGQKKLKLEAELGNMQDPVEDFKNKYEDEINKHTEMENEFVLIKKDVDEAYMNKVELESH

Parental  VDALDEEIKFFKCLYEGEIA-QIQSHISDTSIILSMDNNRNLDLDSIIAEVRAQYEEIAWKSKAEAEALY
          ...L..EI.F...LY..EI.....SHI.DTS..LSMDN...LD.DSIIAEV.AQYEE.A..S.AEA...Y
Retrocopy LEGLTDEINFLRQLYK-EIG<ELHSHILDTSVVLSMDNSCSLDMDSIIAEVKAQYEETANQSQAEAKSMY

Parental  QTKFQELQLAAGRHGDDLKHTKNEISELTRFIQRLRSETESVKKQCANLETAIADAEQRGDCALKDARAK
          Q.K..ELQ..AG.H.DDL.HTK.EISE....I..L..ETE..K.Q.A.LE.A.ADAEQ.G..A.KDA.AK
Retrocopy QIKYEELQMLAGKHSDDLRHTKTEISEMNQNISWLQAETEGLKGQRASLEAAVADAEQHGELAIKDANAK

Parental  LDELEGALQQAKEELARMLREYQELLSVKLSLDIEIATYRKLLEGEECRMSGEYINSVSISVINSSVAGT
          L.ELE.ALQ.AK...A..L.EYQEL...KL.LD.EIATYRKLLEG.E.R......N........SS.AG.
Retrocopy LSELEAALQWAKQDMAWQLHEYQELMNIKLALDMEIATYRKLLEGKESRLESGMQNISIHTKTTSSYAGG

Parental  AGTGAGFGFSNAGTYGYWPSSVS
          .....G...S....YG...SS.S
Retrocopy LSLAYGGLTSPGLSYGLGSSSFS

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_311 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 7 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000017733	8 retrocopies	retro_nleu_1913, retro_nleu_225, retro_nleu_2285, retro_nleu_2421, retro_nleu_2485, retro_nleu_2727, retro_nleu_2787, retro_nleu_672,
Nomascus leucogenys	ENSNLEG00000017740	1 retrocopy	retro_nleu_1808,
Nomascus leucogenys	ENSNLEG00000017746	5 retrocopies	retro_nleu_2270, retro_nleu_2596, retro_nleu_354, retro_nleu_457, retro_nleu_852,
Nomascus leucogenys	ENSNLEG00000017748	2 retrocopies	retro_nleu_2823, retro_nleu_3100,
Nomascus leucogenys	ENSNLEG00000017753	1 retrocopy	retro_nleu_1726,
Nomascus leucogenys	ENSNLEG00000017758	2 retrocopies	retro_nleu_593, retro_nleu_726,
Nomascus leucogenys	ENSNLEG00000026579	1 retrocopy	retro_nleu_311 ,