RetrogeneDB ID: retro_nleu_702

Retrocopy location

• Organism: Gibbon (Nomascus leucogenys)
• Coordinates: GL397270.1:8926561..8927312(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSNLEG00000015951
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FANCL
• Ensembl ID: ENSNLEG00000009472
• Aliases: None
• Description: None

Sequence

>retro_nleu_702
AGACTTGTGTATGCGGATACCTGCTTCAGTACCATCAAGTTAAAAGCAGAAGATGCTTCTGGTAGAGAGCATTTAATCAC
TCAAGTTGAAGGCAAAGTATCCTGCAGAATCACCAGATTATTTTGTGGATTTTCCTGTTCCATTTTGTGCTTCCTGGACA
CCTCAGAGCTCCTTAATAAGCATTTATAGTCAGTTTTTGGCAGCAGTAGAATCACTAAAGGCATTCTGGGATGTTATGGA
TGAAATTGATGAGAAGACCTGGGTACTTGAGCCAGAAAAACCTCCACGGAGTGCAACAGCACGCAGAATTGCATTAGGGA
ATAATGTTTCCATAAATATAGAGGTAGACCCCAGGCATCCTACTATGCTTCCTGAGTGCTTCTTTCTTGGAGCTGACCAT
GTGGTAAAACCCCTGGGAATTAAGCTGAGCAGGAACATACATTTGTGGGATCCAGAAAATAGTGTATTACAAAATTTGAA
AGATGTTTTAGAAATTGATTTTCCAGCTCGTGCTATCCTGGAAAAATCTGATTTTACTATGGATTGTGGAATTTGCTATG
CTTATCAACTTGACGGTACCATTCCTGATCAAGTGTGTGATAAATCCCAGTGTGGACAACCTTTCCATCAAATATGCTTA
TATGAGTGGCTGAGAGGACTACTAACTAGTAGACAGAGTTTTAACATCATATTTAGTGAATGTCCATATTGTAGTAAGCC
AGTTACCTTAAAAATATCTGGAAGGAAACAC

Alignment

ORF - retro_nleu_702 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.04 %
• Parental protein coverage: 67.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLVYADTCFSTIKLKAEDASGREHLITLKLKAK-YPAESPDYFVDFPVPFCASWTPQVNSPQSSLISIYS
          .LVYADTCFSTIKLKAEDASGREHLIT.....K.YPAESPDYFVDFPVPFCASWTPQ..S...S..S...
Retrocopy RLVYADTCFSTIKLKAEDASGREHLIT-QVEGK>YPAESPDYFVDFPVPFCASWTPQ--SSLISIYSQFL

Parental  QFLAAVESLKAFWDIMDEIDEKTWVLEPEKPPRSATARRIALGNNVSINIEVDPRHPTMLPECFFLGADH
          .............D..DE...KTWVLEPEKPPRSATARRIALGNNVSINIEVDPRHPTMLPECFFLGADH
Retrocopy AAVESLKAFWDVMDEIDE---KTWVLEPEKPPRSATARRIALGNNVSINIEVDPRHPTMLPECFFLGADH

Parental  VIKSLPTIVKLLDNIILLIPSMIIVSKLLLLVQLYLPLHKTTKHLDFTMDCGICYAYQLDGTTPDQVCDN
          V.K..P...KL..NI.L..P.......L........P........DFTMDCGICYAYQLDGT.PDQVCD.
Retrocopy VVK--PLGIKLSRNIHLWDPENSVLQNLKDVLEIDFPARAILEKSDFTMDCGICYAYQLDGTIPDQVCDK

Parental  SQCGQPFHQICLYEWLRGLQTSRQSFNIIFGECPYCSKPITLKMSGRKH
          SQCGQPFHQICLYEWLRGL.TSRQSFNIIF.ECPYCSKP.TLK.SGRKH
Retrocopy SQCGQPFHQICLYEWLRGLLTSRQSFNIIFSECPYCSKPVTLKISGRKH

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_702 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000009472	1 retrocopy	retro_nleu_702 ,