RetrogeneDB ID: retro_amel_1171

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192990.1:437285..437501(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP5I
• Ensembl ID: ENSAMEG00000016722
• Aliases: None
• Description: None

Sequence

>retro_amel_1171
ATGGTGCCCCCCATTCAGTTCTGTCCACTCATCAAGCTCGGCTGCTACTCTGCTGGGTTCCTGGACGTGGCCTAGGGAGC
CAAGTGCTACACAGTTACCCAAGACCTCGGGCAGAAGAAGAAAGGAGGAAAGACAGCTGAAGAGAAAAACAAGCAGGATG
AACCGAAAGGGACTGAGAGAGAACTGGCAGAAGCCCAAGACAACAGCATACTAAAG

Alignment

ORF - retro_amel_1171 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.72 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVPPVQVSPLIKLGRYSALFLGMAYGAKRYSYLKPRAEEER-RIAAEEKKKQDERKRIERELAEAQDDSI
          MVPP.Q..PLIKLG.YSA.FL..A.GAK.Y...............AEEK.KQDE.K..ERELAEAQD.SI
Retrocopy MVPPIQFCPLIKLGCYSAGFLDVA*GAKCYTVTQDLGQKKKGGKTAEEKNKQDEPKGTERELAEAQDNSI

Parental  LK
          LK
Retrocopy LK

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_1171 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1171 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016722	2 retrocopies	retro_amel_1171 , retro_amel_1761,
Bos taurus	ENSBTAG00000017496	2 retrocopies	retro_btau_1222, retro_btau_219,
Canis familiaris	ENSCAFG00000023527	1 retrocopy	retro_cfam_62,
Callithrix jacchus	ENSCJAG00000001989	1 retrocopy	retro_cjac_352,
Cavia porcellus	ENSCPOG00000008678	1 retrocopy	retro_cpor_98,
Felis catus	ENSFCAG00000029708	1 retrocopy	retro_fcat_268,
Mustela putorius furo	ENSMPUG00000011414	1 retrocopy	retro_mputfur_494,
Mus musculus	ENSMUSG00000050856	1 retrocopy	retro_mmus_3152,
Otolemur garnettii	ENSOGAG00000012271	1 retrocopy	retro_ogar_1292,
Rattus norvegicus	ENSRNOG00000000064	1 retrocopy	retro_rnor_697,
Tursiops truncatus	ENSTTRG00000002962	1 retrocopy	retro_ttru_1938,