RetrogeneDB ID: retro_nleu_1422

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397292.1:13997368..13997971(-)
• Located in intron of: ENSNLEG00000003938

Retrocopy information

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

Parental gene information

• Parental gene symbol: RIMKLB
• Ensembl ID: ENSNLEG00000002201
• Aliases: None
• Description: None

Sequence

>retro_nleu_1422
AGTGGACACCTCATTGCCTACCCACAAGTGGTGGTAGTCAGAGTACCAACCCCTTGGGTGCAAAGTGATAGTGACATCAC
TGTTTTGCGCCGTCTAGAGAAGATGGGATGTCGGTTAATGAACCGACCTCAAGCCATCCTGAACTGCATTAATAAGTTCT
GGACATTTCAAGAGTTGGCTGGCCATGGTGTTCCTCTGCCAGATACCTTCTCTCATGGTGGCCATGAAAATTTTGCTAAA
ATGATTGATGAAGCTGAAGTACTGGAGTTCCCAATGGTAGTAAAGAATACGCGGGGTCATAGAGGTAAAGCTGTTTTCTT
GGCTCGAGATAAGCACCATTTGGCTGATCTAAGCCATCTTATTCGCCACGAAGCGCCATACCTGTTCCAGAAGTATGTTA
AAGAGTCTCATGGACGGGATGTATGTGTCATTGTCGTGGGAGGCCGTGTGGTTGGCACCATGTTACGTTGTTCAACAGAT
GGGAGAATGCAAAGCAACTGCTCATTAGGTGGTGTGGGGATGATGTGCTCATTGAGTGAACAAGGGAAGCAGCTAGCTAT
CCAGGTGTCTAATATCCTGGGGATGGATGTGTGTGGCATTGAC

Alignment

ORF - retro_nleu_1422 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.56 %
• Parental protein coverage: 52.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NGELITAYPQVVVVRVPTPWVQSDSDITVLRHLEKMGCRLMNRPQAILNCVNKFWTFQELAGHGVPLPDT
          .G.LI.AYPQVVVVRVPTPWVQSDSDITVLR.LEKMGCRLMNRPQAILNC.NKFWTFQELAGHGVPLPDT
Retrocopy SGHLI-AYPQVVVVRVPTPWVQSDSDITVLRRLEKMGCRLMNRPQAILNCINKFWTFQELAGHGVPLPDT

Parental  FSYGGHENFAKMIDEAEVLEFPMVVKNTRGHRGKAVFLARDKAPFGLISHLIRHEAPYLFQKYVKESHGR
          FS.GGHENFAKMIDEAEVLEFPMVVKNTRGHRGKAVFLARDK......SHLIRHEAPYLFQKYVKESHGR
Retrocopy FSHGGHENFAKMIDEAEVLEFPMVVKNTRGHRGKAVFLARDKHHLADLSHLIRHEAPYLFQKYVKESHGR

Parental  DVRVIVVGGRVVGTMLRCSTDGRMQSNCSLGGVGMMCSLSEQGKQLAIQVSNILGMDVCGID
          DV.VIVVGGRVVGTMLRCSTDGRMQSNCSLGGVGMMCSLSEQGKQLAIQVSNILGMDVCGID
Retrocopy DVCVIVVGGRVVGTMLRCSTDGRMQSNCSLGGVGMMCSLSEQGKQLAIQVSNILGMDVCGID

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_1422 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000000332	1 retrocopy	retro_ggor_31,
Nomascus leucogenys	ENSNLEG00000002201	2 retrocopies	retro_nleu_1422 , retro_nleu_1437,
Rattus norvegicus	ENSRNOG00000023814	1 retrocopy	retro_rnor_255,