RetrogeneDB ID: retro_amel_1339

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL193218.1:49266..49575(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSA
• Ensembl ID: ENSAMEG00000001375
• Aliases: None
• Description: None

Sequence

>retro_amel_1339
ATGTTCCAGAAACAAGAAGAGGAGAATCCTGCAAAAGAGACTGCTGAGGAGATGCAGGACACACAGGAGAAAGAAGGTGT
TCTCCCTGAGAGAGCCAAGGACGCAAAGCTAAAGGCCAAATATCCAAGCCTAAGACAAAAGCCTGGAGGCTCTGACTTCC
TCATGAACAGAGTCCAGAAAAGGCAAACATACTTTGACTCAAGAGAGTACAACATGGCCAAAGCCAAGACAAAGAATAAG
CAGCTCCCAAGTGCAGGACCAGACAAGAACCTGGTGACTGGTGATCACATCCCCATCCCACAGGATCTG

Alignment

ORF - retro_amel_1339 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.47 %
• Parental protein coverage: 88.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSQKQEEENPAEETGEEKQDTQEKEGILPERAEEAKLKAKYPSLGQKPGGSDFLMKRLQKGQKYFDSGDY
          M.QKQEEENPA.ET.EE.QDTQEKEG.LPERA..AKLKAKYPSL.QKPGGSDFLM.R.QK.Q.YFDS..Y
Retrocopy MFQKQEEENPAKETAEEMQDTQEKEGVLPERAKDAKLKAKYPSLRQKPGGSDFLMNRVQKRQTYFDSREY

Parental  NMAKAKMKNKQLPSAGPDKNLVTGDHIPTPQDL
          NMAKAK.KNKQLPSAGPDKNLVTGDHIP.PQDL
Retrocopy NMAKAKTKNKQLPSAGPDKNLVTGDHIPIPQDL

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_1339 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1339 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001375	1 retrocopy	retro_amel_1339 ,
Canis familiaris	ENSCAFG00000012054	1 retrocopy	retro_cfam_507,
Loxodonta africana	ENSLAFG00000011261	1 retrocopy	retro_lafr_151,
Mustela putorius furo	ENSMPUG00000004647	1 retrocopy	retro_mputfur_299,
Sorex araneus	ENSSARG00000002625	1 retrocopy	retro_sara_621,