RetrogeneDB ID: retro_pabe_2276

Retrocopy location

• Organism: Orangutan (Pongo abelii)
• Coordinates: 3:198764769..198765706(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM151A
• Ensembl ID: ENSPPYG00000001314
• Aliases: None
• Description: protein FAM151A [Source:RefSeq peptide;Acc:NP_001124958]

Sequence

>retro_pabe_2276
ATGGCCTGCAGGGAGCAGTTATCGAAGAGTCAGGTCAGGTGGGGGTTTGCTGGCACTACCTGTGTTTCTGTAGTGGTCAT
TGCCATGATAGTCCTTGCCATCACCCTGCGTCAGCCAGGCTGTGAGCTGGAGGCCTGCAGCCCCGAGGCCGACATGCTGG
ATTACCTGCTGAGCCTGGGCCAGATCAGCTGCCGAGATGCCCTGGAGGTCACCTGGTACCACGCAGCCAACAGCAAGAAA
GCCACGACAGCTGCCCTGAACAGCAACATCACAGTCCTGGAGGCTGATGTCAATGTCGAAGGGCTCGGCACAGCTGACGA
GACAGGAGCTCCCATCGTGGCACACCCTCCACCTATCTACGATGACAGCGCACTGGAGCAGTGGCTGGATAGTGTGCTGG
GCTCTTCCCAGAAGGGCATCAAACTGGACTTCAAGAACATCAAGGCCGTGGGCCCCTTCCTGGACCTCCTTGGTCGCTGA
CAGAGTGGGGCAAAGTCCGGTGGCCCATGTGGATCAACGCTGACATCTCAAAGGGCCCCGACATGCCCATCTCAGCTGAG
GTCAGTGACACACAGTTCCTGGCCCTGGTCCAGGAGAAGTATCCCAAGGCCACCCTGTCTCCAGGCTGGACCGCCCTCTA
CGTGCCCATGTTCCCAAACAGGATGTACACCCAAGCCATGGTGGAGAAGATGCATGAGCTGGTGGGAGTGGTGCTCCAGA
GGGTCACCTTCCCTGTGCAGTCTTCCACGGTGCGGGCCGCCCAGCCCCACTCCAGCCGGCTGCTGAGCCAATCTGAGAGG
TACAGCCTGACGCTATGGCAGGCTGCCTCGGACCCCATGAGGCAGAGGATCTGCCCTACGTCCAGGATAACACTGCTGTC
CACCACGTCTACTATGACATCTTTGAGCCTTTCCTGTTGCAGTACAAGCAGCTGGCC

Alignment

ORF - retro_pabe_2276 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.27 %
• Parental protein coverage: 53.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MVGREQLSKNQVKWVFASITCVSAVAIAAIVLAITLRRPGCELEACSPDADMLDYLLSLGQISRRDALEV
          M..REQLSK.QV.W.FA..TCVS.V.IA.IVLAITLR.PGCELEACSP.ADMLDYLLSLGQIS.RDALEV
Retrocopy MACREQLSKSQVRWGFAGTTCVSVVVIAMIVLAITLRQPGCELEACSPEADMLDYLLSLGQISCRDALEV

Parental  TWYHAANSKEAMTAALNSNITVLEADVNVEGLGTANETGVPIMAHPPAIYSDNTLEQWLDAVLGSSQKGI
          TWYHAANSK.A.TAALNSNITVLEADVNVEGLGTA.ETG.PI.AHPP.IY.D..LEQWLD.VLGSSQKGI
Retrocopy TWYHAANSKKATTAALNSNITVLEADVNVEGLGTADETGAPIVAHPPPIYDDSALEQWLDSVLGSSQKGI

Parental  KLDFKNIKAVGPSLDLLRR-LTEEGKVRRPIWINADILKGPNMLISTEVNATQFLALVQEKYPKATLSPG
          KLDFKNIKAVGP.LDLL.R.LTE.GKVR.P.WINADI.KGP.M.IS.EV..TQFLALVQEKYPKATLSPG
Retrocopy KLDFKNIKAVGPFLDLLGR<LTEWGKVRWPMWINADISKGPDMPISAEVSDTQFLALVQEKYPKATLSPG

Parental  WTTFYVSTSPNTTYTRAMVEKMHELVGGVPQRVTFPVRSSMVRAAWPHFSWLLSQSERYSLTLWQAASDP
          WT..YV...PN..YT.AMVEKMHELVG.V.QRVTFPV.SS.VRAA.PH.S.LLSQSERYSLTLWQAASDP
Retrocopy WTALYVPMFPNRMYTQAMVEKMHELVGVVLQRVTFPVQSSTVRAAQPHSSRLLSQSERYSLTLWQAASDP

Parental  M-SVEDLLYVRDNTAVHQVYYDIFEPLLSQFKQLA
          M...EDL.YV.DNTAVH.VYYDIFEP.L.Q.KQLA
Retrocopy M<EAEDLPYVQDNTAVHHVYYDIFEPFLLQYKQLA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	0.44 RPM
SRP007412_cerebellum	0.00 RPM	0.24 RPM
SRP007412_heart	0.00 RPM	1.11 RPM
SRP007412_kidney	0.00 RPM	2.65 RPM
SRP007412_liver	0.00 RPM	0.21 RPM

ChIP-Seq

Pongo abelii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_pabe_2276 retrocopy.

TSS

Pongo abelii was not studied using FANTOM5 data.

Lab

retro_pabe_2276 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_pabe_2276 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019801	1 retrocopy	retro_btau_325,
Homo sapiens	ENSG00000162391	1 retrocopy	retro_hsap_2742,
Myotis lucifugus	ENSMLUG00000014446	1 retrocopy	retro_mluc_965,
Macaca mulatta	ENSMMUG00000013680	1 retrocopy	retro_mmul_1489,
Pongo abelii	ENSPPYG00000001314	1 retrocopy	retro_pabe_2276 ,