RetrogeneDB ID:

retro_cint_19

Retrocopy
location
Organism:Vase tunicate (Ciona intestinalis)
Coordinates:1:8930814..8931264(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCING00000021502
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:CIN.22448
Ensembl ID:ENSCING00000018711
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cint_19
ATGGCCGCTAAACGACTGAACAAGGAAGCTGCGGAAATGAAAAACGCAGAAAGTACAGCAAACTGTTCCGCAGGGCCTAT
CGGTGATAACTTGTACCGCTGGGAAGCTAAGATAATTGGTCCAAATGGTACGCCATACGAAAACGGCATCTTTAATCTTA
CTGTTGAATTTCCAACGGATTATCCCTTTAAACCCCCGAAAGTGAAATTCACTACCAAGATATATCATCCCAACATTACC
TCAAACGGCGATATATGCCTAGATATTTTGAAGGGCCAGTGGTCGCCGGCACTTACCCTACTGAAGGTTCTGCTATCAAT
TTCGTCACTGCTTGCCGAGCCAAATCCAGACGACCCGCTCGTCCCAGCAATCGCAAATTTATATAAAAACAATCGACCAG
AATTTAAATCGGTAGCTGCCGCATGGACGGCAAAGTATGCACAAACATAA

ORF - retro_cint_19 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.27 %
Parental protein coverage: 98.65 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMALKRINKELADISR-DPPAQCSAGPVGDDLFQWQATIMGPSDSPYQGGVFFLSIHFPTDYPFKPPKVAF
MA.KR.NKE.A........A.CSAGP.GD.L..W.A.I.GP...PY..G.F.L...FPTDYPFKPPKV.F
RetrocopyMAAKRLNKEAAEMKNAESTANCSAGPIGDNLYRWEAKIIGPNGTPYENGIFNLTVEFPTDYPFKPPKVKF
ParentalSTKIYHPNINSNGSICLDILRSQWSPALTVAKVLLSICSLLCDPNPDDPLVPDIARVFKNDRSKYNDLAR
.TKIYHPNI.SNG.ICLDIL..QWSPALT..KVLLSI.SLL..PNPDDPLVP.IA...KN.R......A.
RetrocopyTTKIYHPNITSNGDICLDILKGQWSPALTLLKVLLSISSLLAEPNPDDPLVPAIANLYKNNRPEFKSVAA
ParentalEWTRKYA
.WT.KYA
RetrocopyAWTAKYA

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






Ciona intestinalis was not studied using RNA-Seq expression data.
Ciona intestinalis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cint_19 retrocopy.
Ciona intestinalis was not studied using FANTOM5 data.
retro_cint_19 was not experimentally validated.

Retrocopy orthology:
Ciona intestinalis 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 38 parental genes, and 166 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000021831 retrocopy
Ailuropoda melanoleuca ENSAMEG000000112166 retrocopies
Bos taurus ENSBTAG000000041616 retrocopies
Canis familiaris ENSCAFG000000310415 retrocopies
Choloepus hoffmanni ENSCHOG000000046492 retrocopies
Ciona intestinalis ENSCING000000068601 retrocopy
Ciona intestinalis ENSCING00000018711 2 retrocopies
retro_cint_19 , retro_cint_29,
Callithrix jacchus ENSCJAG000000154923 retrocopies
Dasypus novemcinctus ENSDNOG0000000932030 retrocopies
Dipodomys ordii ENSDORG000000067622 retrocopies
Equus caballus ENSECAG000000206781 retrocopy
Erinaceus europaeus ENSEEUG000000108201 retrocopy
Erinaceus europaeus ENSEEUG000000146583 retrocopies
Echinops telfairi ENSETEG000000012913 retrocopies
Felis catus ENSFCAG000000249182 retrocopies
Gorilla gorilla ENSGGOG000000013682 retrocopies
Gorilla gorilla ENSGGOG000000108321 retrocopy
Loxodonta africana ENSLAFG000000068782 retrocopies
Macropus eugenii ENSMEUG000000042566 retrocopies
Macaca mulatta ENSMMUG000000206663 retrocopies
Monodelphis domestica ENSMODG000000117832 retrocopies
Mustela putorius furoENSMPUG000000091105 retrocopies
Mus musculus ENSMUSG0000007857811 retrocopies
Mus musculus ENSMUSG000000918963 retrocopies
Ornithorhynchus anatinus ENSOANG000000054151 retrocopy
Oryctolagus cuniculus ENSOCUG0000002944810 retrocopies
Otolemur garnettii ENSOGAG000000128606 retrocopies
Ochotona princeps ENSOPRG000000116959 retrocopies
Pongo abelii ENSPPYG000000149671 retrocopy
Pongo abelii ENSPPYG000000158446 retrocopies
Pan troglodytes ENSPTRG000000173033 retrocopies
Pteropus vampyrus ENSPVAG000000154381 retrocopy
Rattus norvegicus ENSRNOG000000137419 retrocopies
Sus scrofa ENSSSCG000000243061 retrocopy
Sus scrofa ENSSSCG000000298224 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000134816 retrocopies
Tupaia belangeri ENSTBEG000000002705 retrocopies
Tarsius syrichta ENSTSYG000000054591 retrocopy



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