RetrogeneDB ID: retro_nleu_1389

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397291.1:23627787..23628676(-)
• Located in intron of: ENSNLEG00000004952

Retrocopy information

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

Parental gene information

• Parental gene symbol: SERPINH1
• Ensembl ID: ENSNLEG00000016882
• Aliases: None
• Description: None

Sequence

>retro_nleu_1389
TCAGCAACTCCACGCAACGTGACCTGGAAACTGGGCAGCCGCCTGTAGGGACCCAGCTCAGTGAGTTTCGCTGATGACTT
CGTGCGCAGCAGCAAGCAGCACTACAACTGCGAGCACTCCAAGATCAACTTCCATGACACGCGCAGCGCGCTGCAGTCCA
TCCATGAGTGGGCCGCGCAGACCACCGACGGCAAGCTGCCCGAGGTCACCAAGGACATGGAGTGCATGGATGGCGCCTTG
CTTGTCAACGCCATGTTCTTCAAGCCACAGTGGAATGAGAAATTCCACCACAAGATGGTGGAAAACCGTGGCTTCATGGT
GACTCAGTTCTATACCGTGGGTGTCATGATGATGCACCAGACAGGCCTCTACAACTACTGTGACGACGAGAAGGAAAAGC
TGCAAATCGTGGAGATGCCCCTGACCCACAAGCTCTCCAGCCTCATCATCCTCATGCCCCACCACGTGGAGCCCCTGGAG
GCCTTAAAAAGCTGCTAACCAAAGAACAGCTGAATATTGGGATGGGGAAGAAGCAGAAGGCTGTCGCCATCTCCTTGCCC
AAGGGTGTGGTGGAGGTTCCCATAACCTGCAGAAACTCCTCACTGGGCTTGGCCTGACTGAGGCCATTGACAAGAACGAG
GCAAACTTGTCACGCATGCCATGCAAGAAGGACCTGTACCTGACCAGCGTGTTCCATGCCACCGCCTTTGAGTTGGACAC
AGATGGCAACTCCTTTGACCAGGACATCTATGGGAGCGAGAAGCTGCGCAGCCCCAAGCTGTTCTACTTCGACCACCCCT
TCGTCTTCCTGGTGTGGGACACCCAGAGCAGCTCCCTGCTGTTCACTGGGCGCCTAGTCCGGCCTAAGGTTGACAAGATG
CGAGACGAG

Alignment

ORF - retro_nleu_1389 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.33 %
• Parental protein coverage: 71.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NSTARNVTWKLGSRLYGPSSVSFADDFVRSSKQHYNCEHSKINFRDKRSALQSINEWAAQTTDGKLPEVT
          ..T.RNVTWKLGSRL.GPSSVSFADDFVRSSKQHYNCEHSKINF.D.RSALQSI.EWAAQTTDGKLPEVT
Retrocopy SATPRNVTWKLGSRL*GPSSVSFADDFVRSSKQHYNCEHSKINFHDTRSALQSIHEWAAQTTDGKLPEVT

Parental  KDVERTDGALLVNAMFFKPHWDEKFHHKMVDNRGFMVTRSYTVGVMMMHRTGLYNYYDDEKEKLQIVEMP
          KD.E..DGALLVNAMFFKP.W.EKFHHKMV.NRGFMVT..YTVGVMMMH.TGLYNY.DDEKEKLQIVEMP
Retrocopy KDMECMDGALLVNAMFFKPQWNEKFHHKMVENRGFMVTQFYTVGVMMMHQTGLYNYCDDEKEKLQIVEMP

Parental  LAHKLSSLIILMPHHVEPLER-LEKLLTKEQLKIWMGKMQKKAVAISLPKGVVEV-THDLQKHLAGLGLT
          L.HKLSSLIILMPHHVEPLE..L.KLLTKEQL.I.MGK.Q.KAVAISLPKGVVEV..H.LQK.L.GLGLT
Retrocopy LTHKLSSLIILMPHHVEPLEA<LKKLLTKEQLNIGMGKKQ-KAVAISLPKGVVEV<SHNLQKLLTGLGLT

Parental  EAIDKNKADLSRMSGKKDLYLASVFHATAFELDTDGNPFDQDIYGREELRSPKLFYADHPFIFLVRDTQS
          EAIDKN.A.LSRM..KKDLYL.SVFHATAFELDTDGN.FDQDIYG.E.LRSPKLFY.DHPF.FLV.DTQS
Retrocopy EAIDKNEANLSRMPCKKDLYLTSVFHATAFELDTDGNSFDQDIYGSEKLRSPKLFYFDHPFVFLVWDTQS

Parental  GSLLFIGRLVRPKGDKMRDE
          .SLLF.GRLVRPK.DKMRDE
Retrocopy SSLLFTGRLVRPKVDKMRDE

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_1389 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000149257	1 retrocopy	retro_hsap_4151,
Macaca mulatta	ENSMMUG00000007675	1 retrocopy	retro_mmul_1180,
Nomascus leucogenys	ENSNLEG00000016882	1 retrocopy	retro_nleu_1389 ,
Pongo abelii	ENSPPYG00000003691	2 retrocopies	retro_pabe_3459, retro_pabe_3514,
Pan troglodytes	ENSPTRG00000004083	1 retrocopy	retro_ptro_2822,