RetrogeneDB ID:

retro_cint_8

Retrocopy
location
Organism:Vase tunicate (Ciona intestinalis)
Coordinates:10:3972123..3972729(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCING00000006430
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:CI-PER-LIKE
Ensembl ID:ENSCING00000003002
Aliases:None
Description:peroxiredoxin-like [Source:RefSeq peptide;Acc:NP_001027810]


Retrocopy-Parental alignment summary:






>retro_cint_8
CTGCAATCTACCAAAGCTCAAATCTCGAAACCAGCGCCAGACTGGGAGGGTACAGCCATTGTTGATGGTGAAATTAAAAC
AATAAAGCTGGGAGATTACAAAGGAAAATACCTTATTTTCTTTTTTTACCCTCTTGATTTCACTTTTGTATGTCCAACTG
AGATCATTGCCTTCTCAGACAGGGTTGCTGAGTTTAAGAAAATTAATGCTGAAGTTGTGGCAGCTTCTGTTGATTCTCAC
TTCACCCATCTCGCATGGTTAAACACCCATCGCTCTGAGGGAGGTCTTGGAAAACTCAACATTCCTCTTCTGTCCGATCT
CACTCATAAGATATCAAGGGATTATGGAGTCCTTCTGGAGGACCTCGGACACACTCTTCGTGGGCTCTTCATCATTGATC
CCAAAGGTATCTTGAGACAGATCACTATGAATGATCTTCCAGTTGGAAGATCTGTAGACGAGACTTTGAGATTGGTCCAA
GCATTCCAACATACTGATGAGCATGGTGAGGTCTGTCCTGCTGGTTGGGAGCCAGGTAAAGACACCATTATTCCAGACCC
CAAGGATAAACTGAAGTACTTCCACAAAACATCAAAAGCCAAGGGT

ORF - retro_cint_8 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.82 %
Parental protein coverage: 99.49 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMSAGKACIQKSAPDFTATAVVNGDFRDISLSEYKGKYVVLFFYPLDFTFVCPTEIIAFSDRVSEFRDIGC
....KA.I.K.APD...TA.V.G....I.L..YKGKY...FFYPLDFTFVCPTEIIAFSDRV.EF..I..
RetrocopyLQSTKAQISKPAPDWEGTAIVDGEIKTIKLGDYKGKYLIFFFYPLDFTFVCPTEIIAFSDRVAEFKKINA
ParentalEVLACSTDSHFSHLAWTNIPRKKGGIGNMKIPLIADKNCAISKDYGVLMEGSGIAFRGLFIIDTMGILRQ
EV.A.S.DSHF.HLAW.N..R..GG.G...IPL..D....IS.DYGVL.E..G...RGLFIID..GILRQ
RetrocopyEVVAASVDSHFTHLAWLNTHRSEGGLGKLNIPLLSDLTHKISRDYGVLLEDLGHTLRGLFIIDPKGILRQ
ParentalITINDLPVGRSVDETLRLVKAFQFTDQHGEVCPAGWKPGDDTIKPDVQDSQKYFSK
IT.NDLPVGRSVDETLRLV.AFQ.TD.HGEVCPAGW.PG.DTI.PD..D..KYF.K
RetrocopyITMNDLPVGRSVDETLRLVQAFQHTDEHGEVCPAGWEPGKDTIIPDPKDKLKYFHK

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






RNA-Seq - click to see more details

Ciona intestinalis was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ciona intestinalis was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cint_8 retrocopy.

TSS - click to see more details

Ciona intestinalis was not studied using FANTOM5 data.

Lab - click to see more details

retro_cint_8 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 50 parental genes, and 126 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123073 retrocopies
retro_amel_1188, retro_amel_1710, retro_amel_55,
Ailuropoda melanoleuca ENSAMEG000000136322 retrocopies
retro_amel_1116, retro_amel_539,
Bos taurus ENSBTAG000000036422 retrocopies
retro_btau_1299, retro_btau_1446,
Canis familiaris ENSCAFG000000045675 retrocopies
retro_cfam_1313, retro_cfam_270, retro_cfam_577, retro_cfam_834, retro_cfam_988,
Canis familiaris ENSCAFG000000171633 retrocopies
retro_cfam_1603, retro_cfam_1624, retro_cfam_1739,
Choloepus hoffmanni ENSCHOG000000033585 retrocopies
retro_chof_1140, retro_chof_134, retro_chof_1714, retro_chof_2035, retro_chof_2450,
Ciona intestinalis ENSCING00000003002 1 retrocopy
retro_cint_8 ,
Callithrix jacchus ENSCJAG000000048072 retrocopies
retro_cjac_1201, retro_cjac_2884,
Callithrix jacchus ENSCJAG000000048824 retrocopies
retro_cjac_1269, retro_cjac_1795, retro_cjac_2356, retro_cjac_2392,
Cavia porcellus ENSCPOG000000141373 retrocopies
retro_cpor_1079, retro_cpor_290, retro_cpor_398,
Dasypus novemcinctus ENSDNOG000000184881 retrocopy
retro_dnov_2071,
Dipodomys ordii ENSDORG000000089751 retrocopy
retro_dord_727,
Dipodomys ordii ENSDORG000000090051 retrocopy
retro_dord_176,
Equus caballus ENSECAG000000086781 retrocopy
retro_ecab_81,
Echinops telfairi ENSETEG0000000792211 retrocopies
retro_etel_112, retro_etel_1157, retro_etel_1245, retro_etel_1442, retro_etel_1838, retro_etel_2121, retro_etel_2122, retro_etel_308, retro_etel_367, retro_etel_460, retro_etel_556,
Felis catus ENSFCAG000000004731 retrocopy
retro_fcat_1755,
Felis catus ENSFCAG000000284841 retrocopy
retro_fcat_1714,
Homo sapiens ENSG000001174501 retrocopy
retro_hsap_4230,
Homo sapiens ENSG000001678153 retrocopies
retro_hsap_1184, retro_hsap_3278, retro_hsap_3500,
Gorilla gorilla ENSGGOG000000250893 retrocopies
retro_ggor_2366, retro_ggor_2833, retro_ggor_923,
Macropus eugenii ENSMEUG000000068204 retrocopies
retro_meug_1694, retro_meug_1711, retro_meug_2059, retro_meug_662,
Macaca mulatta ENSMMUG000000056892 retrocopies
retro_mmul_1780, retro_mmul_2061,
Macaca mulatta ENSMMUG000000062211 retrocopy
retro_mmul_762,
Monodelphis domestica ENSMODG000000023822 retrocopies
retro_mdom_1787, retro_mdom_555,
Monodelphis domestica ENSMODG000000069781 retrocopy
retro_mdom_1770,
Mustela putorius furoENSMPUG000000045912 retrocopies
retro_mputfur_28, retro_mputfur_660,
Mus musculus ENSMUSG000000051612 retrocopies
retro_mmus_2403, retro_mmus_472,
Mus musculus ENSMUSG000000286915 retrocopies
retro_mmus_1466, retro_mmus_1659, retro_mmus_1786, retro_mmus_3129, retro_mmus_3167,
Nomascus leucogenys ENSNLEG000000128002 retrocopies
retro_nleu_2110, retro_nleu_2883,
Nomascus leucogenys ENSNLEG000000145242 retrocopies
retro_nleu_1040, retro_nleu_1627,
Oryctolagus cuniculus ENSOCUG000000059512 retrocopies
retro_ocun_1064, retro_ocun_1124,
Otolemur garnettii ENSOGAG000000023034 retrocopies
retro_ogar_1219, retro_ogar_1333, retro_ogar_1588, retro_ogar_486,
Otolemur garnettii ENSOGAG000000249982 retrocopies
retro_ogar_1993, retro_ogar_244,
Pongo abelii ENSPPYG000000014111 retrocopy
retro_pabe_3409,
Pongo abelii ENSPPYG000000096073 retrocopies
retro_pabe_2711, retro_pabe_2892, retro_pabe_988,
Pan troglodytes ENSPTRG000000006751 retrocopy
retro_ptro_2874,
Pan troglodytes ENSPTRG000000105413 retrocopies
retro_ptro_2217, retro_ptro_2372, retro_ptro_812,
Pteropus vampyrus ENSPVAG000000150011 retrocopy
retro_pvam_179,
Rattus norvegicus ENSRNOG000000035202 retrocopies
retro_rnor_2288, retro_rnor_497,
Rattus norvegicus ENSRNOG000000171948 retrocopies
retro_rnor_1401, retro_rnor_1488, retro_rnor_1574, retro_rnor_1656, retro_rnor_1736, retro_rnor_2063, retro_rnor_2292, retro_rnor_2401,
Sorex araneus ENSSARG000000001461 retrocopy
retro_sara_96,
Sorex araneus ENSSARG000000047035 retrocopies
retro_sara_153, retro_sara_370, retro_sara_399, retro_sara_633, retro_sara_95,
Sarcophilus harrisii ENSSHAG000000155961 retrocopy
retro_shar_305,
Sus scrofa ENSSSCG000000039141 retrocopy
retro_sscr_719,
Sus scrofa ENSSSCG000000137362 retrocopies
retro_sscr_155, retro_sscr_962,
Ictidomys tridecemlineatus ENSSTOG000000234132 retrocopies
retro_itri_631, retro_itri_817,
Ictidomys tridecemlineatus ENSSTOG000000258621 retrocopy
retro_itri_842,
Tupaia belangeri ENSTBEG000000159974 retrocopies
retro_tbel_3922, retro_tbel_4017, retro_tbel_4024, retro_tbel_4669,
Tarsius syrichta ENSTSYG000000110311 retrocopy
retro_tsyr_1781,
Tursiops truncatus ENSTTRG000000088584 retrocopies
retro_ttru_1350, retro_ttru_1878, retro_ttru_234, retro_ttru_36,


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