RetrogeneDB ID: retro_amel_1693

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193987.1:101370..101741(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C2orf76
• Ensembl ID: ENSAMEG00000008507
• Aliases: None
• Description: chromosome 2 open reading frame 76 [Source:HGNC Symbol;Acc:27017]

Sequence

>retro_amel_1693
ATGACTTCTGAAGAAGTGATCATTGCAGTTTGTCTCATTCATTCATTTGAGAATCACAATTACAAACCCGTAGTATATCA
CGGACTTAATTTGGACCAGACCGTAAGGGAACTTAGAGTATTTCCAAAGCAAGATGTCTCTTTAAGGACCAGCCTGCACC
ACCATTCAGAAATTATGAATATGATAAACTAAAGATAACTCATCAAGCACATTAGTCAAAGGCAAAGTAACTTGTATTGT
GTTTGAAAAATGACAGACCCCTATTAAAAGAAGGCAGCACTCTGAAAGCTGTGAGAATCACCAATGAAACTGAAATTGCA
TTCTTCTTTGAAGAGGATTTTGAGAACTACAAGGCTAATCTCATTTCATCC

Alignment

ORF - retro_amel_1693 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.7 %
• Parental protein coverage: 99.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASKGVTITVRLIRSFEHRNFRPVVYHGVNLDQTTKEFILFLKQDIPLRTSL-PPPFRNYKYDKLKIVHQ
          M.S..V.I.V.LI.SFE..N..PVVYHG.NLDQT..E...F.KQD..LRTSL..PPFRNY.YDKLKI.HQ
Retrocopy MTSEEVIIAVCLIHSFENHNYKPVVYHGLNLDQTVRELRVFPKQDVSLRTSL<APPFRNYEYDKLKITHQ

Parental  AHRAKSNELVLSLEDDDTLMLEEDSTLRTAGIAHETEIAFFCEEDYKNYKANPISS
          AH..K...LVL.L..D..L.L.E.STL....I..ETEIAFF.EED..NYKAN.ISS
Retrocopy AH*SKAK*LVLCLKNDRPL-LKEGSTLKAVRITNETEIAFFFEEDFENYKANLISS

Legend:

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

Expression

RNA-Seq

Ailuropoda melanoleuca was not studied using RNA-Seq expression data.

ChIP-Seq

Ailuropoda melanoleuca was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_amel_1693 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1693 was not experimentally validated.

Homology

Retrocopy orthology:

Ailuropoda melanoleuca 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008507	2 retrocopies	retro_amel_1062, retro_amel_1693 ,
Bos taurus	ENSBTAG00000010599	1 retrocopy	retro_btau_965,
Canis familiaris	ENSCAFG00000004896	2 retrocopies	retro_cfam_1119, retro_cfam_1727,
Equus caballus	ENSECAG00000002063	1 retrocopy	retro_ecab_384,
Myotis lucifugus	ENSMLUG00000004031	1 retrocopy	retro_mluc_1204,
Mustela putorius furo	ENSMPUG00000000943	1 retrocopy	retro_mputfur_726,
Mus musculus	ENSMUSG00000026388	1 retrocopy	retro_mmus_947,
Pteropus vampyrus	ENSPVAG00000011615	1 retrocopy	retro_pvam_337,
Sus scrofa	ENSSSCG00000015718	1 retrocopy	retro_sscr_311,