RetrogeneDB ID: retro_nleu_2270

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397340.1:5068832..5069975(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT5
• Ensembl ID: ENSNLEG00000017746
• Aliases: None
• Description: None

Sequence

>retro_nleu_2270
GGGGGTGGCCTGGGTGGCAGCTCTGGTGGGGCCAGCAGCATGGGAGGCATCACCGCCGTCATGGTCAACCAGAGCCTGCT
GAGCCTCCTTAACCTGGAGGTGGACCCCAACATCCAGGCCGTGCACACCCAGGAGAAGGAGCAGATCAGGACCCTCAACA
ACAAGTTTGCCTCCTTCATAGACAAGGTATGGTTCCTGGAGCAGCAGAACAAGATGGTAGAGACCAAGTGGAGCCTCGTG
CAGCAGCAGCAGATGGCTTGAAGCAACATGGGCAACATGTTCAAGAGCTACAACAACCCTAGGGGGCAGCCAGACACTCT
GGTCCAGGAGAAGCTGAAGCTGGAGGCAGAGCTTGGCAACATGCAGCGGCTGGTGGAGGACTTTAAGAACAAGTACAAGG
ATGAGATCAATAAGCGTACAGAGATGGAGAATGAATTTATCCTCATCAAGAAGGACATGGATGACGCTTACATGAACAAG
GTAGAGCTGGAGTCTCACCTGGAAGGGCTGGCTGACGAGATCAATTTCCTCAGGCAGCTGTATGAAGAGGAGACCCCGGA
GCTGCAGTCCCAGATCTCGGACACATCTGTGGTGCTGTCCATGGACAACAGCCACTCCCTGGACATGGATAGCATCATCA
CTGAGGTCAAGGCATAGTATGAGGAGATCGCCAACCACAGCCGGGCTGAGGCTAAGAGCATGTACCAGATCAAGTATAAG
GAGCCGCAGACGCTGGCTGAGAAGCAAGAGAATGACCTAAGGCGTACTAAGACTGAGATCTCCAAGATGAACTGGAACAT
CAGCCGGCCCCAGGCTGAGATTGAGGGCCTCAAAAGCCAGAGGGCTTGCCTGGAGGCCGCCATCGCAGATGCCAAGCAGC
GTGGGGAGCTGGCCATTAAGGATGCCAACACCAAGCTGTCTGAGCTGGAGGCTGCCCTGCAATGGGCCATGCAGGACATG
GCGTGGCAGCTGCATGAGTACCAGGAGCTGAAGAACGTGAAGCTGGCCCTGGACATCGAGATTGCCACCTACCAGAAGCT
GCTGGAGAGTAAGAAGAGCCACCTGGAGTCTGGGATGCAGAACATGAGTATCCATACGAAGACCACCAGCGCCTATGCAG
ATGGTCTGAGCTTGGCCTATGGG

Alignment

ORF - retro_nleu_2270 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.25 %
• Parental protein coverage: 65.32 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGGFGGPGFPVCPPGGIQEVTVNQSLLTPLNLQIDPSIQRVRTEEREQIKTLNNKFASFIDKVRFLEQQN
          GGG.GG........GGI..V.VNQSLL..LNL..DP.IQ.V.T.E.EQI.TLNNKFASFIDKV.FLEQQN
Retrocopy GGGLGGSSGGASSMGGITAVMVNQSLLSLLNLEVDPNIQAVHTQEKEQIRTLNNKFASFIDKVWFLEQQN

Parental  KVLDTKWTLLQEQGTKTVRQNLEPLFEQYINNLRRQLDSIVGERGRLDSELRNMQDLVEDFKNKYEDEIN
          K...TKW.L.Q.Q.......N....F..Y.NN.R.Q.D..V.E...L..EL.NMQ.LVEDFKNKY.DEIN
Retrocopy KMVETKWSLVQQQ--QMA*SNMGNMFKSY-NNPRGQPDTLVQEKLKLEAELGNMQRLVEDFKNKYKDEIN

Parental  KRTTAENEFVMLKKDVDAAYMNKVELEAKVDALMDEINFMKMFFDAELSQMQTHVSDTSVVLSMDNNRNL
          KRT..ENEF...KKD.D.AYMNKVELE.....L.DEINF.......E....Q...SDTSVVLSMDN...L
Retrocopy KRTEMENEFILIKKDMDDAYMNKVELESHLEGLADEINFLRQLYEEETPELQSQISDTSVVLSMDNSHSL

Parental  DLDSIIAEVKAQYEEIANRSRTEAESWYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNV
          D.DSII.EVKA.YEEIAN.SR.EA.S.YQ.KY.E.Q..A.....DLR.TK.EIS.MN..I.R..AEI...
Retrocopy DMDSIITEVKA*YEEIANHSRAEAKSMYQIKYKEPQTLAEKQENDLRRTKTEISKMNWNISRPQAEIEGL

Parental  KKQCANLQNAIADAEQRGELALKDARNKLAELEEALQKAKQDMARLLREYQELMNTKLALDVEIATYRKL
          K.Q.A.L..AIADA.QRGELA.KDA..KL.ELE.ALQ.A.QDMA..L.EYQEL.N.KLALD.EIATY.KL
Retrocopy KSQRACLEAAIADAKQRGELAIKDANTKLSELEAALQWAMQDMAWQLHEYQELKNVKLALDIEIATYQKL

Parental  LEGEECRLSGEGVGPVNISVVTSSVSSGYGGGSGYSSG
          LE.....L.....G..N.S..T....S.Y..G.....G
Retrocopy LESKKSHLES---GMQNMSIHTKT-TSAYADGLSLAYG

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_2270 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 12 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011913	4 retrocopies	retro_chof_1848, retro_chof_2381, retro_chof_2385, retro_chof_778,
Erinaceus europaeus	ENSEEUG00000009412	1 retrocopy	retro_eeur_521,
Echinops telfairi	ENSETEG00000007907	1 retrocopy	retro_etel_1586,
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,
Pongo abelii	ENSPPYG00000004548	1 retrocopy	retro_pabe_1103,
Vicugna pacos	ENSVPAG00000011707	3 retrocopies	retro_vpac_334, retro_vpac_551, retro_vpac_555,