RetrogeneDB ID: retro_nleu_2823

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397442.1:994434..995680(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT6A
• Ensembl ID: ENSNLEG00000017748
• Aliases: None
• Description: None

Sequence

>retro_nleu_2823
TTCTCCCTAGTGGGCAGCAGCAGCTTCCGGGCTGACCTGGGCAGAGGCTATGGTGGGACTAGCGGCATGGGAGGCATCAC
CGCTGTCACAATCAACCAGAGCCTGCTGAGCCCCCTTAGGAGGTGGATCCCAACATCCAGGCCATGCGCACCCAGGAGAA
GGAGCAGATCAAGAACCCCACCAACAAGTTTGCCTCCTTCATCGACAAGGTACTGTTCCTGGGGCCGCAGAACAAGAGGC
TGGAGACCAAGTGGAGCCTCCTGCAGCAGCAGAAGACGGCTGGGAGCCACATGGATATGCTCCAGAGCTGCATCAACAAC
CTTAGGCGACAGCTGGAGACTCTGGGCCAGGAGAAGCTGAAGCTGGAGGCGGAGCTTGGCAACATGCAGGGGCTGGTGGA
GGACTTCAAGAACAAGTACTAGGATGAGATCAATAAGCGTACAGAGATGGAGAATCAATTTGTCCTCATCAAGAAGGATG
TGCATGAAGCTTACATGAACAAGTTAGAGCTGGAGTCTGGCCTGGAAAGGGCTGACTGACGAGATCAACTTCCTCAGGCG
GCTGTATGAAGAGAAGATCGGGGAGCTGCAGGCCCAGATCTCCTCCACGTCTGTGGTGCTGTCCATGGACAATAGCCGCT
CCCTGGACATGGACAGCATCATCGCTGAGGGCAAGGCGCAGTACGAAATCTCCAACCGCAGGCGGGCTGAGGCTGAGAGC
ATGTACCAGATCAAGTATGAGAAGCTGCAGGCGCTGGCTGGGAAGCACTGGGATGACGTGCAGCATACAAAGACTGAGAC
CTCCGAGATAAACTGGAACATCAGTGGGCTCCAGGCTGAGACTGAGGGCCTCAAAGGCCAGAGGGCTTCCCTGGAGGCCG
CCATCGCAGACGCCGAGCAGCCTGAGGAGCTGGCAGTTAAGGGTGCCAACGCCAAGCTCTCCGAGCTGGAGGCCGCCCTG
CAGCCGGCCAAGCAGGACATGGCGCGGCAGCTGCGTGAGTACCAGGAGCTGATGAACGTCAAGCTGACCCTGGACATCGA
GATCGAGGTCGCCACCTACAGGGAAGCTGCTGGAGAGCGAGGAGAGCCGGCTGGAGTCTGGGATGCAGAACATGAGTATC
CATACGAAGACCACCAGCGGCTATGCAGGTGCGCTGAGCTCGGCCTATGGAGGCCTCACCAGCCCCGGCCTCAGCTACGG
CCTGGGCTCCAGCCTTGGCTCTGGCATGGGCTCCAGCTCCTTCAGC

Alignment

ORF - retro_nleu_2823 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.91 %
• Parental protein coverage: 74.82 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FGLAGGAGLAGGFGGPGFPVCPPGGIQEVTINQSLLTPLNLQIDPT-IQRVRAEEREQIKTLNNKFASFI
          F.L.G........G.........GGI..VTINQSLL.PL...I.PT.IQ..R..E.EQIK...NKFASFI
Retrocopy FSLVGSSSFRADLGRGYGGTSGMGGITAVTINQSLLSPLRRWI-PT<IQAMRTQEKEQIKNPTNKFASFI

Parental  DKVRFLEQQNKVLETKWTLLQEQGTKTVRQNLEPLFEQYINNLRRQLDSIVGERGRLDSELRGMQDLVED
          DKV.FL..QNK.LETKW.LLQ.Q..KT............INNLRRQL.....E...L..EL..MQ.LVED
Retrocopy DKVLFLGPQNKRLETKWSLLQQQ--KTAGSHMD-MLQSCINNLRRQLETLGQEKLKLEAELGNMQGLVED

Parental  FKNKYEDEINKRTAAENEFVTLKKDVDAAYMNKVELQAKADT-LTDEINFLRALYDAELSQMQTHISDTS
          FKNKY.DEINKRT..EN.FV..KKDV..AYMNK.EL.......LTDEINFLR.LY.......Q..IS.TS
Retrocopy FKNKY*DEINKRTEMENQFVLIKKDVHEAYMNKLELESGLER>LTDEINFLRRLYEEKIGELQAQISSTS

Parental  VVLSMDNNRNLDLDSIIAEVKAQYEEIAQRSRAEAESWYQTKYEELQVTAGRHGDDLRNTKQEIAEINRM
          VVLSMDN.R.LD.DSIIAE.KAQY.EI..R.RAEAES.YQ.KYE.LQ..AG.H.DD...TK.E..EIN..
Retrocopy VVLSMDNSRSLDMDSIIAEGKAQY-EISNRRRAEAESMYQIKYEKLQALAGKHWDDVQHTKTETSEINWN

Parental  IQRLRSEIDHVKKQCANLQAAIADAEQRGEMALKDAKNKLEGLEDALQKAKQDLARLLKEYQELMNVKLA
          I..L..E....K.Q.A.L.AAIADAEQ..E.A.K.A..KL..LE.ALQ.AKQD.AR.L.EYQELMNVKL.
Retrocopy ISGLQAETEGLKGQRASLEAAIADAEQPEELAVKGANAKLSELEAALQPAKQDMARQLREYQELMNVKLT

Parental  LDVEI--ATYR-KLLEGEECRLNGEGVGQVNISVVQSTVSSGYGGASGIGSGLGLGGGSSYSYGSGLGVG
          LD.EI..ATYR.KLLE.EE.RL.....G..N.S....T..SGY.GA.....G.....G.SY..GS.LG.G
Retrocopy LDIEIEVATYR>KLLESEESRLES---GMQNMSIHTKT-TSGYAGALSSAYGGLTSPGLSYGLGSSLGSG

Parental  GGFSSSS
          .G.SS.S
Retrocopy MGSSSFS

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_2823 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000002190	1 retrocopy	retro_mmur_1094,
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,
Tupaia belangeri	ENSTBEG00000000416	1 retrocopy	retro_tbel_1535,