RetrogeneDB ID: | retro_drer_12 | ||
Retrocopy location | Organism: | Zebrafish (Danio rerio) | |
| Coordinates: | 10:19598884..19600180(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDARG00000078394 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CABZ01059627.1 | ||
| Ensembl ID: | ENSDARG00000079681 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_drer_12
AGTTCAGCTTCACAAGGTACCACCTATGGTGTAATTACCCAGGCTCAAGGTGCAAGTCAGTCTGCTCCAGGATCTTCATC
CCCATATACAACCATATCATTGCCCAAATATGTTACTAGTCAGTTGATAACTGGACCAAGTTCAAAGCAATTTACCTCCG
TCTATGGCACCCAGACAGGATCCTCTGCCCCTTTTACTTTGAAAGAAAGTACCACATATGGTGAACAAATCCAGACTCAA
GATGCCACAAGTCAATTAGTTTTGGGATCTTCAAACCCTTACGCATCTGTATCATCACCTCAAGTTGTTACAAGTCAGTT
GACGCCTGTGCCAGGTTCGAAGCAGGTTACATCTGTCTATGGCACTCAGACTGGTTCTTTTGCTCCCTTCACTCTGCAAA
AACTATTCCAGGGTAAAGGTTCAACAAGCCCGGTTTTTTCAGTACCTTCAACCTCATACGCCTCTGTATCATTGCCCCAA
GGTGTTACTAGTCAGTCGACCACAGTGCCAAGTTCAAAGCAGATAACCTCTGTCTACCCCACCCAGACAGGATCCTCTGC
CCCTTTCACTTTGCAAGAACTACTCCAGGGTCCAGATTCAACAAGTCAGGTTGTTTATGGATCTTCAACCCCATATGTAT
CTTTATCATTACCCCAAAGTGTTACTAGTCAGTCAACGACAGTGCCAAGTTCAAAGCAGATAACCTCTGTCTATACCACC
CAGGCAGGATCCTCTGTCCCTTTCACTTTGCAAGAACTACTTCAGGGTCAAGATTCAACAAGCCAGGTTGTTTATGAATC
TTCAACCCCATATGTATATTTATCATCGCCCCAAGTTGTTACTAGTCAGTTGACACCTGTGTCAGGTTCAAAGCAGGTTA
CACCCGTGTATACAACCCAGACAGGATCCTCTGTCCCTTTCACTTTGCAAGGACTACTCCAGGGTCAAGATTCAACAAGT
CAGGTTGTTTATGGTTCTTCATTCCCATACTTATTTGTATCGACGCCCCAAGTTGTTACTAGCCAGTTGACACTTGTGCC
AAGTTCAAAGCAGGTTACCACTGTCTATGGCACTCAGACTGATTCTTCGGCTCCCTTCACTCTGCAAAAACTACTTCAGG
GTAAAGGTTCAACAAGCCAGGTTGTTTCAGAACCTTCAACCCCGTATGTATCTGTATCATTGCCACAAGTTGTAACTAGT
CAGACGTATAAAGTGCCAAGTTCGAAGCAGGTAACCTCTGTCTACACCACCCAGACAGGATCCTCTGCCCCTTTCACTTT
GCAAGAACTACTCCAG
ORF - retro_drer_12 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.24 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SSASQGTTYGVITQAQGASQSAPGSSSPYTTISLPKYVTSQLITGPSSKQFTSVYGTQTGSSAPFTLKES |
| SSASQGTTYGVITQAQGASQSAPGSSSPYTTISLPKYVTSQLITGPSSKQFTSVYGTQTGSSAPFTLKES | |
| Retrocopy | SSASQGTTYGVITQAQGASQSAPGSSSPYTTISLPKYVTSQLITGPSSKQFTSVYGTQTGSSAPFTLKES |
| Parental | TTYGGQIQTQDATSQLVLGSSTPYISVSSPQVVTSQLTPVPGSKPVTSVYGTRTGSSAPFTLQRLLQGKG |
| TTYG.QIQTQDATSQLVLGSS.PY.SVSSPQVVTSQLTPVPGSK.VTSVYGT.TGS.APFTLQ.L.QGKG | |
| Retrocopy | TTYGEQIQTQDATSQLVLGSSNPYASVSSPQVVTSQLTPVPGSKQVTSVYGTQTGSFAPFTLQKLFQGKG |
| Parental | STSQVVSVPSTPYIAVSLPQGVTSLSTPVSSSKQVTSVYTTQTGPSAPFTLQELLQGQDATSQFVSGSSS |
| STS.V.SVPST.Y..VSLPQGVTS.ST.V.SSKQ.TSVY.TQTG.SAPFTLQELLQG.D.TSQ.V.GSS. | |
| Retrocopy | STSPVFSVPSTSYASVSLPQGVTSQSTTVPSSKQITSVYPTQTGSSAPFTLQELLQGPDSTSQVVYGSST |
| Parental | PYVAVSMPQVVTSQS-AVPCSKQVTSVYGTQTGSSAPFTLQRLLQGKDATSKLVLASSTPYVSVSSPQVV |
| PYV..S.PQ.VTSQS..VP.SKQ.TSVY.TQ.GSS.PFTLQ.LLQG.D.TS..V..SSTPYV..SSPQVV | |
| Retrocopy | PYVSLSLPQSVTSQSTTVPSSKQITSVYTTQAGSSVPFTLQELLQGQDSTSQVVYESSTPYVYLSSPQVV |
| Parental | TSQLTPVPGSKPVTSVYTTQTGSSVPFTLQGVLQGQDSTSQVVYGSSTPYVSVSLPQDVTSQLTPVPSSK |
| TSQLTPV.GSK.VT.VYTTQTGSSVPFTLQG.LQGQDSTSQVVYGSS.PY..VS.PQ.VTSQLT.VPSSK | |
| Retrocopy | TSQLTPVSGSKQVTPVYTTQTGSSVPFTLQGLLQGQDSTSQVVYGSSFPYLFVSTPQVVTSQLTLVPSSK |
| Parental | QVTSVYTTQTGSSAPFTLQGVLQGQDATSQFVSRSLSPYVAFSLPQVVTSQS-AVPSSKQITSVYGTRTG |
| QVT.VY.TQT.SSAPFTLQ..LQG...TSQ.VS....PYV..SLPQVVTSQ...VPSSKQ.TSVY.T.TG | |
| Retrocopy | QVTTVYGTQTDSSAPFTLQKLLQGKGSTSQVVSEPSTPYVSVSLPQVVTSQTYKVPSSKQVTSVYTTQTG |
| Parental | SSAPYTLQ |
| SSAP.TLQ | |
| Retrocopy | SSAPFTLQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Danio rerio was not studied using RNA-Seq expression data.
Danio rerio was not studied using ChIP-Seq data.
7 EST(s) were mapped to retro_drer_12 retrocopy
| EST ID | Start | End | Identity | Match | Mis-match | Score |
|---|---|---|---|---|---|---|
| BM071978 | 19599275 | 19599707 | 98.4 | 424 | 7 | 417 |
| BQ263746 | 19598907 | 19599541 | 98.2 | 622 | 12 | 610 |
| BQ263821 | 19598910 | 19599421 | 98.5 | 503 | 8 | 495 |
| DY552011 | 19598908 | 19599606 | 97.9 | 690 | 8 | 679 |
| DY574386 | 19598908 | 19599605 | 97.8 | 688 | 9 | 676 |
| EB880570 | 19599345 | 19599749 | 95.8 | 391 | 12 | 377 |
| EV558591 | 19598932 | 19599376 | 98.7 | 438 | 6 | 432 |
Danio rerio was not studied using FANTOM5 data.
retro_drer_12 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_drer_12 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Danio rerio | ENSDARG00000079681 | 1 retrocopy |
retro_drer_12 ,
|