RetrogeneDB ID: retro_amel_1889

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL195249.1:58407..58866(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MOB1A
• Ensembl ID: ENSAMEG00000017359
• Aliases: None
• Description: MOB kinase activator 1A [Source:HGNC Symbol;Acc:16015]

Sequence

>retro_amel_1889
GTCCCTGATGGCTCCTGTCAGTGTGAACTCTTAAAACAGGCAGAAGCAACTCTAGGAAGTGGGAATCTGAGACAAGCTGT
TATGTTGCCAGAGGGGGAGGACCTCAGTGAATGCATTGCAGTTAACACTGTGGATCCCTTCAACCAGATCAGCACCCTGT
ATGGAGCTGTTACAGAATTCTGCACTGAGGCAAGGTGTCCAGTCATGCCTGCAGGTCCAAGATAAGAATATCATTGGGCA
GACGGTACTAATATCAAAAAGCCCATCAAATGTTCTGCACCAAAATACATTGACTATTTGATAACTTGGGTTCAGGATCA
GCTTGATGATTAAACTCTTTTTCCTTCTAAGATTGGTATCCCATTTCCAAAAAACTTTATGTGTGTGTCAAATATCATTC
TGAAGCATCTGTTCCTGGTTTATGCCCATATTTATCACGTGCAAGAGGATGCCTACCTC

Alignment

ORF - retro_amel_1889 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.39 %
• Parental protein coverage: 70.83 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IPEGSHQYELLKHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINMLYGTITEFCTEASCPVMS
          .P.GS.Q.ELLK.AEATLGSGNLRQAVMLPEGEDL.E.IAVNTVD.FNQI..LYG..TEFCTEA.CPVM.
Retrocopy VPDGSCQCELLKQAEATLGSGNLRQAVMLPEGEDLSECIAVNTVDPFNQISTLYGAVTEFCTEARCPVMP

Parental  AGPRYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPFPKNFMSVAKTILKRLFRV
          AGPR.EYHWADGTNIKKPIKCSAPKYIDYL.TWVQDQLDD.TLFPSKIG.PFPKNFM.V...ILK.LF.V
Retrocopy AGPR*EYHWADGTNIKKPIKCSAPKYIDYLITWVQDQLDD*TLFPSKIGIPFPKNFMCVSNIILKHLFLV

Parental  YAHIYHQHFDSVM
          YAHIYH...D...
Retrocopy YAHIYHVQEDAYL

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_1889 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_1889 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889 ,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226, retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,