RetrogeneDB ID:

retro_amel_724

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192589.1:549553..549947(+)
Located in intron of:ENSAMEG00000001934
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GTSF1
Ensembl ID:ENSAMEG00000000939
Aliases:None
Description:gametocyte specific factor 1 [Source:HGNC Symbol;Acc:26565]


Retrocopy-Parental alignment summary:






>retro_amel_724
ATCAATTCCCTGGACCCTGAAAAGCTATTATAACACCCCTCTGATAAAAACCACTAGCTCAGGGTCTGCAGGCTTCCTTA
ACATTTTATCAAGGGCAGAAAGAATCATCCTGATGTCACAAACAAATTGGCTACTTTGTCCCTTCGATGCTCACCACACC
AGGTTCCTTGGGCCAAAAATCAGTCATCCTATCTCAAGCTGTGACGATAAAAGTTGTATCGAGCAGGATGTTGTCAACCA
AACCAGGAACCTTGGACAAGAGTTCTGGCTGACAGCACATGGCAGTATCCTTCTTTGCGATGAAGACTGGGATAAAGCTC
TGTGGGAACAGACCAGCACCCCATTTGTCTGGGGCACAGCCAACTACTGTGGCAACAACAGCCCTGCAAGCAAC

ORF - retro_amel_724 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.87 %
Parental protein coverage: 77.38 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalIDSLDPEKLLQCPYDKNHQIRACRFPYHLIKCRKNHPDVANKLATCPFNAR-HQVPRAE-ISHHISSCDD
I.SLDPEKLL..P.DKNH..R.CR.P.H.IK.RKNHPDV.NKLAT.......HQVP.A..ISH.ISSCDD
RetrocopyINSLDPEKLL*HPSDKNH*LRVCRLP*HFIKGRKNHPDVTNKLATLSLRCSPHQVPWAK>ISHPISSCDD
ParentalKSYIEQDVVNQTRNLGQE-TLAESTWQCPP-CDEDWDKDLWEQTSTPFVWGTANYCGNNSPASN
KS.IEQDVVNQTRNLGQE..LA.STWQ.P..CDEDWDK.LWEQTSTPFVWGTANYCGNNSPASN
RetrocopyKSCIEQDVVNQTRNLGQE<VLADSTWQYPS>CDEDWDKALWEQTSTPFVWGTANYCGNNSPASN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_724 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_724 was not experimentally validated.

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 21 parental genes, and 48 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000142603 retrocopies
Ailuropoda melanoleuca ENSAMEG00000000939 6 retrocopies
Ailuropoda melanoleuca ENSAMEG000000009581 retrocopy
Bos taurus ENSBTAG000000180851 retrocopy
Canis familiaris ENSCAFG000000064652 retrocopies
Choloepus hoffmanni ENSCHOG000000016592 retrocopies
Callithrix jacchus ENSCJAG000000189681 retrocopy
Dasypus novemcinctus ENSDNOG000000014384 retrocopies
Equus caballus ENSECAG000000136182 retrocopies
Echinops telfairi ENSETEG000000093101 retrocopy
Felis catus ENSFCAG000000101565 retrocopies
Loxodonta africana ENSLAFG000000163181 retrocopy
Macropus eugenii ENSMEUG000000162061 retrocopy
Microcebus murinus ENSMICG000000084441 retrocopy
Myotis lucifugus ENSMLUG000000129613 retrocopies
Mustela putorius furoENSMPUG000000056693 retrocopies
Otolemur garnettii ENSOGAG000000172272 retrocopies
Rattus norvegicus ENSRNOG000000368311 retrocopy
Tarsius syrichta ENSTSYG000000046792 retrocopies
Tursiops truncatus ENSTTRG000000044701 retrocopy
Vicugna pacos ENSVPAG000000070165 retrocopies



Copyright © RetrogeneDB 2014-2017