RetrogeneDB ID: | retro_ocun_966 | ||
Retrocopylocation | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 18:7628474..7630838(+) | ||
| Located in intron of: | ENSOCUG00000012865 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | HK1 | ||
| Ensembl ID: | ENSOCUG00000006697 | ||
| Aliases: | None | ||
| Description: | hexokinase 1 [Source:HGNC Symbol;Acc:4922] |
Retrocopy-Parental alignment summary:
>retro_ocun_966
AAGAAGATTGACAAGTATCTCTACGCCATGCAGCTCTCTGATGAAACTCTGGTAGATATCATGACTCGCTTCAAGAAGGA
GATGAAGAATGGCCTCTCCCAGGATTTTAACCCAACAGCCACAGTCAAGATGTTGCCAACGTTTGTAAGGTCCATTCCTG
ATGGTTCCGAAAAGGGAGATTTCATCGCCCTGGATCTCGGGGGGTCTTCCTTTCGGATTCTGTGGGTGCAAGTGAATCAC
GAGAAGAAGCAGAATGTCCACATGGAGTCCGAGGCCTACGAAACCCCCGAGAACATCGTGCATGGCAGCGGGAGCCAGCT
TTTCGATCATGTTGCTGAATGCCTGGGAGACTTCATGGAGAAAAGGAACATCAAGGACAACAAACTGCCCGTGGGATTCA
CCTTCTCGTTCCCTTGCCGACAATCAAAAATAGACGAGGCTGTCCTGATCACCTGGACAAAGCGATTCAAGGCGAGCGGC
GTGGAAGGGGCAGATGTGGTCAAGCTGCTGAACAAAGCCATCAAAAAGCGAGGGGACTATGACGCCAACATCGTGGCTGT
GGTGAACGACACGGTGGGGACCATGATGACATGTGGCTACGACGACCAGCAGTGTGAAGTCGGCCTGATTATTGGCACCG
GCACCAACGCGTGCTACATGGAGGAGCTGAGGCACATCGACCTGGTGGAGGGTGACGAGGGCAGGATGTGCATCAACACG
GAGTGGGGGGCCTTCGGCGACGACGGCGCCCTGGAAGACATCCGCACTGAGTTTGACAGGGAGATCGACCGGGGCTTGCT
CAACCCGGGGAAGCAGCTGTTCGAGAAGATGGTCAGTGGCATGTACATGGGGGAGCTGGTCCGGCTGATCCTGGTCAAGA
TGGCCAAAGAGGGCCTCTTGTTCGAAGGGTGAATCACCCCAGAGCTGCTCACCCGAGGGAAGTCCAACACCAGCGACGTG
TCAGCCATCAAAAAGAATAAGGAAGGCCTCCACAACGCCAAAGAGATCCTGACCCGCCTGGGAGTGGAGCCGTCCGACGA
TGACTGTATTTCCGTTCAGCATGTGTGCACCATTGTCTCGTTCCGCTCGGCCAACCTGGCGGCTGCCACGCTGGGCGCCA
TCTTGAACCGCCTGCGGGACAACAAGGGCACGCCCCGGCTACGCACCACCGTTGGTGTCGACGGCTCTCTGTACAAGACA
CACCCACAGTATTCCCGGCGTTTCCACAAGACCCTGAGGCGCCTGGTGCCTGACTCCGATGTGCGCTTCCTGCTGTCGGA
GAGTGGCAGCAGCAAGGGGGCTGCCATGGTGATGGCGGTGGCCTACCGCCTGGCTGAGCAGCACCGGCAGATAGAGGAGA
CCCTGGCCCACTTCCGCCTCACCAAGGAGATGCTGCTGGAGGTGAAGAAGAGGATGCGGACCGAGATGGAGGCGGGGCTG
AGGAGGCAGACGCACGACAAGGCCGTGGTCAAGATGCTGCCCTCCTTCGTCCGCAGCACCCCCGACGGCACCGAGAACGG
TGACTTCTTGGCCCTGGATCTCGGAGGAACGAACTTCCGCGTCCTGTTGGTGAAAATCCATAGCAGGAAGAAGCACACAG
TGGAGATGCAAAACAAGATCTATGCCATCCCTCTGGAGATCATGCAGGGCACCGGGGAAGAGCTGTTCGACCACATCATC
TCCTGCATCTCCAACTTCCTGGACTACATGGGAATCAAGGGCCCGCGGATGCCACTGGGCTTCACATTCTCGTTCCCCTG
CAAGCAGACGAGTCTCGACGCGGGAATCTTGGTCACCTGGACCAAAGGCTTCAAGGCAACTGACTGCGTGTGCCATGACG
TAGCCACTTTACTGAGGGACGCCATCAAAAGGAGAGAGGAATTTGACCTGGATGTGGTGGCCATGGTCAATGACACGGTG
GGCACCATGATGACCTGTGCATACGAGGAGCCCACCTGCGAGGTTGGACTTATTGTAGGGACGGGCTGCAATGCCTGCTA
CATGGAGGAGATGAGGAACGTGGAGATGCTGGAGGGGAACGAGGGGCAGATGTGCATCAACATGGAGTGGGGCGCCTTTG
GTGACAACGGTTGTCTGGATGACATCAGAACCATCTATGACCGACTGGTGGACGAATATTCTCTAAACGCTGGGAAGCAG
AGGTACGAGAAGATGATCAGCGGCATGTACCTGGGGGAGATCGTCTGCAACATCCTCATAGACTTCAAGAAGGGCTTCCT
CTTCTGCGGGCAGGTCTCCGAGCCGCTCAAGACGAGGGGCATCTTTGAGACCAAGTTCCTCTCTCAGATCGAGAGCGACC
GGCTGGCGCTGCTCCAGGTGCGGGCCATCCTCCAGCAGCTGGGT
AAGAAGATTGACAAGTATCTCTACGCCATGCAGCTCTCTGATGAAACTCTGGTAGATATCATGACTCGCTTCAAGAAGGA
GATGAAGAATGGCCTCTCCCAGGATTTTAACCCAACAGCCACAGTCAAGATGTTGCCAACGTTTGTAAGGTCCATTCCTG
ATGGTTCCGAAAAGGGAGATTTCATCGCCCTGGATCTCGGGGGGTCTTCCTTTCGGATTCTGTGGGTGCAAGTGAATCAC
GAGAAGAAGCAGAATGTCCACATGGAGTCCGAGGCCTACGAAACCCCCGAGAACATCGTGCATGGCAGCGGGAGCCAGCT
TTTCGATCATGTTGCTGAATGCCTGGGAGACTTCATGGAGAAAAGGAACATCAAGGACAACAAACTGCCCGTGGGATTCA
CCTTCTCGTTCCCTTGCCGACAATCAAAAATAGACGAGGCTGTCCTGATCACCTGGACAAAGCGATTCAAGGCGAGCGGC
GTGGAAGGGGCAGATGTGGTCAAGCTGCTGAACAAAGCCATCAAAAAGCGAGGGGACTATGACGCCAACATCGTGGCTGT
GGTGAACGACACGGTGGGGACCATGATGACATGTGGCTACGACGACCAGCAGTGTGAAGTCGGCCTGATTATTGGCACCG
GCACCAACGCGTGCTACATGGAGGAGCTGAGGCACATCGACCTGGTGGAGGGTGACGAGGGCAGGATGTGCATCAACACG
GAGTGGGGGGCCTTCGGCGACGACGGCGCCCTGGAAGACATCCGCACTGAGTTTGACAGGGAGATCGACCGGGGCTTGCT
CAACCCGGGGAAGCAGCTGTTCGAGAAGATGGTCAGTGGCATGTACATGGGGGAGCTGGTCCGGCTGATCCTGGTCAAGA
TGGCCAAAGAGGGCCTCTTGTTCGAAGGGTGAATCACCCCAGAGCTGCTCACCCGAGGGAAGTCCAACACCAGCGACGTG
TCAGCCATCAAAAAGAATAAGGAAGGCCTCCACAACGCCAAAGAGATCCTGACCCGCCTGGGAGTGGAGCCGTCCGACGA
TGACTGTATTTCCGTTCAGCATGTGTGCACCATTGTCTCGTTCCGCTCGGCCAACCTGGCGGCTGCCACGCTGGGCGCCA
TCTTGAACCGCCTGCGGGACAACAAGGGCACGCCCCGGCTACGCACCACCGTTGGTGTCGACGGCTCTCTGTACAAGACA
CACCCACAGTATTCCCGGCGTTTCCACAAGACCCTGAGGCGCCTGGTGCCTGACTCCGATGTGCGCTTCCTGCTGTCGGA
GAGTGGCAGCAGCAAGGGGGCTGCCATGGTGATGGCGGTGGCCTACCGCCTGGCTGAGCAGCACCGGCAGATAGAGGAGA
CCCTGGCCCACTTCCGCCTCACCAAGGAGATGCTGCTGGAGGTGAAGAAGAGGATGCGGACCGAGATGGAGGCGGGGCTG
AGGAGGCAGACGCACGACAAGGCCGTGGTCAAGATGCTGCCCTCCTTCGTCCGCAGCACCCCCGACGGCACCGAGAACGG
TGACTTCTTGGCCCTGGATCTCGGAGGAACGAACTTCCGCGTCCTGTTGGTGAAAATCCATAGCAGGAAGAAGCACACAG
TGGAGATGCAAAACAAGATCTATGCCATCCCTCTGGAGATCATGCAGGGCACCGGGGAAGAGCTGTTCGACCACATCATC
TCCTGCATCTCCAACTTCCTGGACTACATGGGAATCAAGGGCCCGCGGATGCCACTGGGCTTCACATTCTCGTTCCCCTG
CAAGCAGACGAGTCTCGACGCGGGAATCTTGGTCACCTGGACCAAAGGCTTCAAGGCAACTGACTGCGTGTGCCATGACG
TAGCCACTTTACTGAGGGACGCCATCAAAAGGAGAGAGGAATTTGACCTGGATGTGGTGGCCATGGTCAATGACACGGTG
GGCACCATGATGACCTGTGCATACGAGGAGCCCACCTGCGAGGTTGGACTTATTGTAGGGACGGGCTGCAATGCCTGCTA
CATGGAGGAGATGAGGAACGTGGAGATGCTGGAGGGGAACGAGGGGCAGATGTGCATCAACATGGAGTGGGGCGCCTTTG
GTGACAACGGTTGTCTGGATGACATCAGAACCATCTATGACCGACTGGTGGACGAATATTCTCTAAACGCTGGGAAGCAG
AGGTACGAGAAGATGATCAGCGGCATGTACCTGGGGGAGATCGTCTGCAACATCCTCATAGACTTCAAGAAGGGCTTCCT
CTTCTGCGGGCAGGTCTCCGAGCCGCTCAAGACGAGGGGCATCTTTGAGACCAAGTTCCTCTCTCAGATCGAGAGCGACC
GGCTGGCGCTGCTCCAGGTGCGGGCCATCCTCCAGCAGCTGGGT
ORF - retro_ocun_966 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.34 % |
| Parental protein coverage: | 85.67 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KKIDKYLYAMRLSDETLVDIMTRFKKEMKNGLSRDFNPTATVKMLPTFVRSIPDGSEKGDFIALDLGGSS |
| KKIDKYLYAM.LSDETLVDIMTRFKKEMKNGLS.DFNPTATVKMLPTFVRSIPDGSEKGDFIALDLGGSS | |
| Retrocopy | KKIDKYLYAMQLSDETLVDIMTRFKKEMKNGLSQDFNPTATVKMLPTFVRSIPDGSEKGDFIALDLGGSS |
| Parental | FRILRVQVNHEKKQNVHMESEAYETPENIVHGSGSQLFDHVAECLGDFMEKRNIKDKKLPVGFTFSFPCR |
| FRIL.VQVNHEKKQNVHMESEAYETPENIVHGSGSQLFDHVAECLGDFMEKRNIKD.KLPVGFTFSFPCR | |
| Retrocopy | FRILWVQVNHEKKQNVHMESEAYETPENIVHGSGSQLFDHVAECLGDFMEKRNIKDNKLPVGFTFSFPCR |
| Parental | QSKIDEAVLITWTKRFKASGVEGADVVKLLNKAIKKRGDYDANIVAVVNDTVGTMMTCGYDDQQCEVGLI |
| QSKIDEAVLITWTKRFKASGVEGADVVKLLNKAIKKRGDYDANIVAVVNDTVGTMMTCGYDDQQCEVGLI | |
| Retrocopy | QSKIDEAVLITWTKRFKASGVEGADVVKLLNKAIKKRGDYDANIVAVVNDTVGTMMTCGYDDQQCEVGLI |
| Parental | IGTGTNACYMEELRHIDLVEGDEGRMCINTEWGAFGDDGALEDIRTEFDREIDRGSLNPGKQLFEKMVSG |
| IGTGTNACYMEELRHIDLVEGDEGRMCINTEWGAFGDDGALEDIRTEFDREIDRG.LNPGKQLFEKMVSG | |
| Retrocopy | IGTGTNACYMEELRHIDLVEGDEGRMCINTEWGAFGDDGALEDIRTEFDREIDRGLLNPGKQLFEKMVSG |
| Parental | MYMGELVRLILVKMAKEGLLFEGRITPELLTRGKFNTSDVSAIEKNKEGLHNAKEILTRLGVEPSDDDCI |
| MYMGELVRLILVKMAKEGLLFEG.ITPELLTRGK.NTSDVSAI.KNKEGLHNAKEILTRLGVEPSDDDCI | |
| Retrocopy | MYMGELVRLILVKMAKEGLLFEG*ITPELLTRGKSNTSDVSAIKKNKEGLHNAKEILTRLGVEPSDDDCI |
| Parental | SVQHVCTIVSFRSANLVAATLGAILNRLRDNKGTPRLRTTVGVDGSLYKTHPQYSRRFHKTLRRLVPDSD |
| SVQHVCTIVSFRSANL.AATLGAILNRLRDNKGTPRLRTTVGVDGSLYKTHPQYSRRFHKTLRRLVPDSD | |
| Retrocopy | SVQHVCTIVSFRSANLAAATLGAILNRLRDNKGTPRLRTTVGVDGSLYKTHPQYSRRFHKTLRRLVPDSD |
| Parental | VRFLLSESGSGKGAAMVTAVAYRLAEQHRQIEETLAHFRLTKEMLLEVKKRMRTEMEAGLRRQTHDKAVV |
| VRFLLSESGS.KGAAMV.AVAYRLAEQHRQIEETLAHFRLTKEMLLEVKKRMRTEMEAGLRRQTHDKAVV | |
| Retrocopy | VRFLLSESGSSKGAAMVMAVAYRLAEQHRQIEETLAHFRLTKEMLLEVKKRMRTEMEAGLRRQTHDKAVV |
| Parental | KMLPSFVRSTPDGTENGDFLALDLGGTNFRVLLVKIRSGKKRTVEMHNKIYAIPLEIMQGTGEELFDHIV |
| KMLPSFVRSTPDGTENGDFLALDLGGTNFRVLLVKI.S.KK.TVEM.NKIYAIPLEIMQGTGEELFDHI. | |
| Retrocopy | KMLPSFVRSTPDGTENGDFLALDLGGTNFRVLLVKIHSRKKHTVEMQNKIYAIPLEIMQGTGEELFDHII |
| Parental | SCISDFLDYMGIKGPRMPLGFTFSFPCKQTSLDAGILVTWTKGFKATDCVGHDVATLLRDAIKRREEFDL |
| SCIS.FLDYMGIKGPRMPLGFTFSFPCKQTSLDAGILVTWTKGFKATDCV.HDVATLLRDAIKRREEFDL | |
| Retrocopy | SCISNFLDYMGIKGPRMPLGFTFSFPCKQTSLDAGILVTWTKGFKATDCVCHDVATLLRDAIKRREEFDL |
| Parental | DVVAMVNDTVGTMMTCAYEEPTCEVGLIVGTGCNACYMEEMRNVEMLEGNEGQMCINMEWGAFGDNGCLD |
| DVVAMVNDTVGTMMTCAYEEPTCEVGLIVGTGCNACYMEEMRNVEMLEGNEGQMCINMEWGAFGDNGCLD | |
| Retrocopy | DVVAMVNDTVGTMMTCAYEEPTCEVGLIVGTGCNACYMEEMRNVEMLEGNEGQMCINMEWGAFGDNGCLD |
| Parental | DIRTIYDRLVDEYSLNAGKQRYEKMISGMYLGEIVRNILIDFTKKGFLFRGQVSEPLKTRGIFETKFLSQ |
| DIRTIYDRLVDEYSLNAGKQRYEKMISGMYLGEIV.NILIDF.KKGFLF.GQVSEPLKTRGIFETKFLSQ | |
| Retrocopy | DIRTIYDRLVDEYSLNAGKQRYEKMISGMYLGEIVCNILIDF-KKGFLFCGQVSEPLKTRGIFETKFLSQ |
| Parental | IESDRLALLQVRAILQQLG |
| IESDRLALLQVRAILQQLG | |
| Retrocopy | IESDRLALLQVRAILQQLG |
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 | 23 .68 RPM | 310 .66 RPM |
| SRP017611_kidney | 12 .06 RPM | 97 .00 RPM |
| SRP017611_liver | 0 .46 RPM | 7 .78 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_966 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_966 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_966 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000006697 | 1 retrocopy |
retro_ocun_966 ,
|
| Tupaia belangeri | ENSTBEG00000016359 | 1 retrocopy |