RetrogeneDB ID: retro_amel_1055

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192869.1:675161..675497(-)
• Located in intron of: ENSAMEG00000006583

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000008959
• Aliases: None
• Description: Sulfurtransferase [Source:UniProtKB/TrEMBL;Acc:G1LQT6]

Sequence

>retro_amel_1055
GAAACTAACAAACTAATGAATTACAAAACATTAGATTAATTGATGTTAAAGACACAGTGGGCATTCTTGAACATGGAAAA
ATTCCGGGGTCTATCGATACTCCATTAAATGAGGTAGACCAAGCTCATAGGAAGCCAAGATATTTTAAAGAGAAGTACAA
TGAAATAAAACCATCCGAATCTGGCAGTCTAGTGTATTCTTGTCTAGCTAGATGAGAAAGAAGTGAAAAGACTTGGGACA
CAGCAATGTCTTTGGGTTTTAATAGTGTTCAGTACCATGCTGGATTTTGGGAAAAGTGGGCAACATAACGAATTTTCAGA
GAATAAACAAGGAAAT

Alignment

ORF - retro_amel_1055 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.26 %
• Parental protein coverage: 82.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ELKNLLNSK-KIMLIDVRETWEIVEYGKIPGSVNIPLDEVGEALQMDPKDFKEKYNEVKPSKSDSLVFSC
          E...L.N.K..I.LIDV..T..I.E.GKIPGS...PL.EV..A....P..FKEKYNE.KPS.S.SLV.SC
Retrocopy ETNKLMNYK<NIRLIDVKDTVGILEHGKIPGSIDTPLNEVDQA-HRKPRYFKEKYNEIKPSESGSLVYSC

Parental  LAG-VRSKKALDMAMSLGFNSAQHYAGGWKEWAT-YEFSEKKHEN
          LA...RS.K..D.AMSLGFNS.Q..AG.W..WAT..EFSE.K..N
Retrocopy LAR*ERSEKTWDTAMSLGFNSVQYHAGFWEKWAT>NEFSENKQGN

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_1055 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1055 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008959	1 retrocopy	retro_amel_1055 ,
Bos taurus	ENSBTAG00000038931	1 retrocopy	retro_btau_1353,
Canis familiaris	ENSCAFG00000030791	1 retrocopy	retro_cfam_606,
Callithrix jacchus	ENSCJAG00000031571	1 retrocopy	retro_cjac_1967,
Equus caballus	ENSECAG00000024361	1 retrocopy	retro_ecab_791,
Gorilla gorilla	ENSGGOG00000022586	1 retrocopy	retro_ggor_1345,
Otolemur garnettii	ENSOGAG00000025707	2 retrocopies	retro_ogar_2601, retro_ogar_527,