RetrogeneDB ID: | retro_cint_23 | ||
Retrocopy location | Organism: | Vase tunicate (Ciona intestinalis) | |
| Coordinates: | 11:4823873..4824602(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCING00000019488 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | JNK | ||
| Ensembl ID: | ENSCING00000009313 | ||
| Aliases: | None | ||
| Description: | c-jun N-terminal kinase [Source:RefSeq peptide;Acc:NP_001071750] |
Retrocopy-Parental alignment summary:
>retro_cint_23
CTTCTAAAGTATGAGGACTTGATCCCCATAGGCTGCGGTGCTTATGGGAGTGTGTGTTCTACTTATAACTCTGAGCTTAA
AATGAGAATGGCCGTCAAAAAGTTGGCAAGACCGTTTCAATCTGTGACGCACGCTAAGCGAACATACAGGGAACTGAGGT
TACTGAAACACATGCATCATGAGAATGTTATCGGGCTGTTGGACGTCTTCACACCAGCTACTACATTGGAGGGATTCACG
GACATGTACCTCGTCACACACTTAATGGGTGCAGACCTTAACCAGATCATAAAATCACAGAAGTTGACAGACGACCACGT
CCAGTTTTTAATTTATCAAATCCTAAGGGGTTTGAAGTACATTCACTCTGCAGGGATCATACATCGAGATCTCAAACCAA
GCAATATAGCAGTGAACGAAGACTGTGAACTGAAAATTCTTGACTTTGGTCTGGCTAGACTCACAGATGACCAAATGACC
GGATACGTTGCAACGCGATGGTATAGAGCGCCTGAAATTATGTTAAACTGGATGCACTACAACCAGACTGTAGATCTATG
GTCTGTTGGTTGCATTATGGCCGAGCTGCTCACTGGAAAGACCCTATTCCCAGGCTCTGATCATATTGACCAGTTAAAGT
CAATAATGAATCTTTGCGGGACGCCGAGAGAGGATTTATTGGAGAAAATAATCTCGCAATCGGCGAGAAATTTCATCAAA
ACGCTTCCC
ORF - retro_cint_23 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.24 % |
| Parental protein coverage: | 55.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LKRYQSLKPIGSGAQGMVCAAHDTVLGQHVAIKKLSRPFQNPTHAKRAYRELVLMRAVNHKNIIGLLNVF |
| L..Y..L.PIG.GA.G.VC......L....A.KKL.RPFQ..THAKR.YREL.L.....H.N.IGLL.VF | |
| Retrocopy | LLKYEDLIPIGCGAYGSVCSTYNSELKMRMAVKKLARPFQSVTHAKRTYRELRLLKHMHHENVIGLLDVF |
| Parental | SPQSSYEDFSHVYLVMELMDASLCQVIQ-MDLDHERLSYLLYQLLCGIKHLHSAGIIHRDLKPSNIVVRS |
| .P....E.F...YLV..LM.A.L.Q.I....L.......L.YQ.L.G.K..HSAGIIHRDLKPSNI.V.. | |
| Retrocopy | TPATTLEGFTDMYLVTHLMGADLNQIIKSQKLTDDHVQFLIYQILRGLKYIHSAGIIHRDLKPSNIAVNE |
| Parental | DCTLKILDFGLARTAGGSFMMTPYVVTRYYRAPEVILG-MGYQEVVDIWSVGCIFGEMIRGQVLFPGNDH |
| DC.LKILDFGLAR.......MT.YV.TR.YRAPE..L..M.Y...VD.WSVGCI..E...G..LFPG.DH | |
| Retrocopy | DCELKILDFGLARLTDD--QMTGYVATRWYRAPEIMLNWMHYNQTVDLWSVGCIMAELLTGKTLFPGSDH |
| Parental | IDQWNKITEQLGTPSEDFINK-LQPTVRNYVLNRP |
| IDQ...I....GTP.ED...K......RN.....P | |
| Retrocopy | IDQLKSIMNLCGTPREDLLEKIISQSARNFIKTLP |
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_23 retrocopy.
Ciona intestinalis was not studied using FANTOM5 data.
retro_cint_23 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ciona intestinalis | ENSCING00000009313 | 1 retrocopy |
retro_cint_23 ,
|
| Ciona savignyi | ENSCSAVG00000005955 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000008538 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000014533 | 1 retrocopy |