RetrogeneDB ID: retro_amel_935

Retrocopy location

• Organism: Panda (Ailuropoda melanoleuca)
• Coordinates: GL192756.1:776349..776597(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSAMEG00000010076
• Aliases: None
• Description: None

Sequence

>retro_amel_935
GCAGGCACTGAACTTCACCCATACCACAGACTGCAGGTGGTGCATACCTGTAAGCAGGTGATGACTGGGATGAACTACTT
CTTAGACTTGGAGATTGGCCAAACCAGATGTACCAGTTCCAGGCCAATTTAGACAGCTGTCTCTTCTATGACTAGCTACA
CCTGATGAGAAAAACACTCTGCTCTTTCCAGAAATACACTGTCCACTGGCTGGGCAAGACCTTCATGGTGAAGCCCAGTT
GCCAAAAT

Alignment

ORF - retro_amel_935 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.52 %
• Parental protein coverage: 58.87 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ASNDAYHSRAIRVVRARKQVVAGMNYFLEVEIGRTTCTKSQP-NLDSCPFHDQPRLMRKTLCSFQIYTVP
          A...........VV...KQV..GMNYFL..EIG.T.CT.S.P.NLDSC.F.D...LMRKTLCSFQ.YTV.
Retrocopy AGTELHPYHRLQVVHTCKQVMTGMNYFLDLEIGQTRCTSSRP<NLDSCLFYD*LHLMRKTLCSFQKYTVH

Parental  WLGKTSLVKSSCQD
          WLGKT..VK.SCQ.
Retrocopy WLGKTFMVKPSCQN

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_935 retrocopy.

TSS

Ailuropoda melanoleuca was not studied using FANTOM5 data.

Lab

retro_amel_935 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010076	1 retrocopy	retro_amel_935 ,
Felis catus	ENSFCAG00000024003	1 retrocopy	retro_fcat_1975,
Loxodonta africana	ENSLAFG00000015020	1 retrocopy	retro_lafr_777,
Myotis lucifugus	ENSMLUG00000028312	2 retrocopies	retro_mluc_2081, retro_mluc_2613,
Mustela putorius furo	ENSMPUG00000001122	2 retrocopies	retro_mputfur_716, retro_mputfur_801,
Rattus norvegicus	ENSRNOG00000005195	1 retrocopy	retro_rnor_2853,