RetrogeneDB ID: | retro_ocun_635 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 13:16769016..16769957(-) | ||
| Located in intron of: | ENSOCUG00000026059 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ENDOG | ||
| Ensembl ID: | ENSOCUG00000021275 | ||
| Aliases: | None | ||
| Description: | endonuclease G [Source:HGNC Symbol;Acc:3346] |
Retrocopy-Parental alignment summary:
>retro_ocun_635
ATGCGGAAGCTGCGGGCCGCTCTCACCCTGACGCTGGGTGCGGGGCTGGGCGCCGCCGCCAAGAGCTGGCGGCGGCGGCG
GGCGGACGCGTGGCCGGCTCACGGACTGCCGGGCCGGCTGCCCGTGCTGCCCGTGGCCGCGGCGGCTGAGCTGCCCGCCC
TCCCTTGGGACGCGGGGGCCGTTCGGCGGGCGAGCTGGCCAAGTACGGGCTGCCTAGGGTGGCGCAGCTCCAGAGCCGCG
AGTCGTACCTGCTGTGCTAGGACGCGCACACCCGCGGCGCGCTCTGGGTGGTGGAGCAGCTGCGGCCCGAGCGGCTGCGG
GGCGCCGGCGACCGGCGCTCGTGCGACTTCCGCGAGGACAACTAGGTGCACGCGTACCACCGCGCCACCAGTGCCGACTA
CCGCGGCAGCGGCTTCGACCGCGGACACCTCGCCGCCGCCGCCAACCACCGCTGGAGCCAGAAGGCGTGGACGACACCTA
CTACCTGAGCAACATGGCGCCCCAGGTGCCCCCCACCCCCAACCAGAACGCCAGTAACAACCTGGGGAAGTACAGCCGCA
GCTTGACCCGCACCGACCAGACATCTACGTGTGCACTGGGCCGCTCTTCCTGCCCAGGATGGAGGCCGACGGGAAGGCCT
ATGTGAACTACCAGGTGATCGGCAAGAACCACGTGGTGGTGCCCACGCACTTCTTCAAGTGCCCACGTCATTCCTGGAGG
CGGCGGGTGGGCAGGTCGAGCTGCGTTCCCACGGGATGCCCAAGGCGCCCGTGGAGGAGGCCATCCCGCTGGAGCGCCTC
CTGGTGCCCATCAAGGAGCACTGAGCGGGTCTTGGGGCTGCTCTTCGTGCCCAACAGCCTGGCGCGGACCGGCTGCCTCA
AGGCCATCACTGCCGGCGGCAAGTGAGGGCGGCAGCCCAGAGGGACCGCGCTGGGGGCGGG
ORF - retro_ocun_635 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.62 % |
| Parental protein coverage: | 97.8 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | MRTLRAALTLTLGAGLGAVAESWRRQRADARPAPGLLGRLPVLPVAAAAELPALPGGAGA-RAAGELAKY |
| MR.LRAALTLTLGAGLGA.A.SWRR.RADA.PA.GL.GRLPVLPVAAAAELPALP..AGA.R.AGELAKY | |
| Retrocopy | MRKLRAALTLTLGAGLGAAAKSWRRRRADAWPAHGLPGRLPVLPVAAAAELPALPWDAGA<RSAGELAKY |
| Parental | GLPGVAQLKSRESYVLCYDARTRGALWVVEQLRPERLRGAGDRRSCDFREDDSVHAYHRAC-QRRLPRQR |
| GLP.VAQL.SRESY.LC.DA.TRGALWVVEQLRPERLRGAGDRRSCDFRED..VHAYHRA..Q.RLPRQR | |
| Retrocopy | GLPRVAQLQSRESYLLC*DAHTRGALWVVEQLRPERLRGAGDRRSCDFREDN*VHAYHRAT<QCRLPRQR |
| Parental | LRPRPPRRRRQPPLEPEG-HGRHLLPEQRGAPGAP-PQPERLEQPGEVHPQPDPHLPE-RLRVHRAALPA |
| LRPR.PRRRRQPPLEPEG..GRHLLPEQ.GAPGAP.PQPER..QPGEV.PQ.DPH.P...LRVH.AALPA | |
| Retrocopy | LRPRTPRRRRQPPLEPEG<RGRHLLPEQHGAPGAPHPQPERQ*QPGEVQPQLDPHRPD<HLRVHWAALPA |
| Parental | QDGGRREGLCEVPGDRQEPRGGAHALLQ-GAH--PGGGGWADRAALLRDAQRARGRGPAAGALPGAH-RE |
| QDGGRREGLCE.PGDRQEPRGGAHALLQ..AH..PGGGGWA.RAA..RDAQ.ARG.G..AGA.PGAH..E | |
| Retrocopy | QDGGRREGLCELPGDRQEPRGGAHALLQ<SAHVIPGGGGWAGRAAFPRDAQGARGGGHPAGAPPGAH>KE |
| Parental | HRAGLGAALRAQHPGADRQPQGHRCRRPVR-AGPRDRAGAG |
| H.AGLGAALRAQ.PGADR.PQGH.CRR.VR.A..RDRAG.G | |
| Retrocopy | H*AGLGAALRAQQPGADRLPQGHHCRRQVRAAAQRDRAGGG |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .00 RPM | 8 .55 RPM |
| SRP017611_kidney | 0 .00 RPM | 13 .68 RPM |
| SRP017611_liver | 0 .08 RPM | 7 .94 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_635 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_635 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_635 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000021275 | 1 retrocopy |
retro_ocun_635 ,
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