RetrogeneDB ID: | retro_ecab_65 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 21:28168490..28171001(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000004795 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSECAG00000016242 | ||
| Aliases: | None | ||
| Description: | Tuftelin-interacting protein 11 [Source:UniProtKB/TrEMBL;Acc:F6TXE8] |
Retrocopy-Parental alignment summary:
>retro_ecab_65
ATGTCGCTGCCCCACTTTTACCGGGACGGGGAAGGCCACATGGATGATGATGAGGACGAGCGGGAGAACTTCGAGATCAC
CGACTGGGATCTCCAGAATGAATTCAACCCCAACCGGCAGCGCCACTGGCGGACCAAGGAAGAGGCCACCAATGGAGTGT
GGACAGAGCGAGCCTCGGATGGAGAGAGACCCAGCTTTGGAGGCAAACGAGCTCGCGACTGCTCAGCGCCAGTCAGCTTC
ATCAGCGCGGGGCTCAAGAAGCGGGCAGCAGAGGAGGCGGAGCTGGAAGATTCTGATGACGAAGAGGAGCCTGTCAAGCA
GGATGACTTTCCTAAGGATTTTGGACCCAAGAAGTTAAAAACGGGAGGCAACTTTACACCCAGCCAGAAAGGCTTTGCTG
GAGGAACCAAGTCTTTCATGGATTTTGGCAGCTGGGAGAGACACACAAAAGGAATTGGACAGAAGCTTCTTCAGAAAATG
GGCTACGTCCCTGGGAGGGGCCTCGGGAAGAATGCACAAGGTATCATTAAGCCAATCGAAGCCAAACAGAGAAAGGGCAG
AGGCGCTGTGGGAGCTTACGGCTCCGAGCGCACCCCCCAGTCCCTGCAGGACTTCCCTGTGGTCCACTCAAAGGAAGAGG
CCGAGGAGTTTCAGAAGGAGCTGAGCCAGTGGAGACAAGGCCCCAGTGGAAGCAAGAAGAAGCCCAAATACTTTTACAAG
ACCGTGGAAGAGTTGAAGGCCAAGGGCAGGGTTAGCAAGCAGCTCACCGCCCCCGAGAAGGAGCTTTCTCAGGTCAAGGT
CATAGACATGACTGGCCGCGAGCAGAAGGTCTACTTCAGCTACAGCCAGATCAGCCACAAGCACAACGTCCCCGGCGACG
GGCTGCTGCTGCAGTCGCCGCAGCCACCACAGCCCGGCAAAGAGGCCAAGGCCCCGGGCTTCGCGCTGCCAGAGCTGGAG
CACAACCTGCAGTTGCTCATCGACCTCACGGAGCAGGAGATCATCCAGAACGACCGGCAGCTGCAGTACGAGCGGGACAT
GGTGGTCAACCTCTCCCACGAGCTGGAGAAGATGTCGGAGGTCCTGGACCACGAGGAGCGGCTCATCTCCAAACTCAGCA
AGGTCTTGGAGATGGTGGAGGAGTGCGAGCGGTGCATGCAGCCCAACTGCAGCGACCCCCTCACGCTGGACGGGTGCACC
CACATCTTTGAGACCCTGAGGGACAAGTACTATGAGGACTACTGGATGTCCCACCGTGTGGACCTCACTGTGGCCATCGT
CTACCCACTCATGAAGGAGTACTTCAAGGAGTGGGACCCCCTCAAAGACTGTACTTATGGCACCGAGATCATCTCTAAGT
GGAAAAGCCTCCTGGAGAACGACCAGCTCCTGTCGCACGGTGAGCAGGACCTCTTGGCAGATGCCTTTCACAGGCTCATT
TGGGAAGTCTGGATGCCTCTCGTTCGAAACATTGTCACCCAGTGGCAACCAAGGAACTGTGACCCGATGGTGGACTTTTT
GGATAGCTGGGTGCACATTATCCCCGTGTGGATCTTAGATACCATCCTGGACCAGCTCATCTTCCCCAAGCTGCAGAAGG
AGGTGGAGAACTGGAACCCACTGACGGACACCATCCCCATCCATTCCTGGATCCACCCGTGGCTGCCCCTCATGCAGGCA
CGTCTGGAGCGGCTCTATTCCTCCATCCGCAGCAAACTGTCCCGTGCCCTGCAGAAGTGGCACCCCAGCGACTCCTCAGC
CAAGCTCATTCTGCAGCCCTGGAAGGAGGTCTTCACCCCTGGCTCCTGGGAAGCATTCATGGTCAAGAACATAGTGCCCA
AGCTGGAGATGTGTCTTGGCGAGTTGGTCATTAACCCCCACCAGCAGCACATGGATGCCTTTTATTGGGTCATCACCTGG
GAAGGGATGATCTCTGTCTCCAGCCTGGTGGGGCTTCTTGAAAAGCACTTCTTTCCCAAGTGGCTTCAGGTGCTGTGCTC
CTGGCTCAGTAACAGCCCCAATTATGAGGCGATCACCAAGTGGTACCTGGGTTGGAAGTCCGTGTTCTCAGACCAAGTGC
TGGCACACCTGTCCGTCAACGACAAGTTTAATGAAGCACTTGACATTATGAACAGGGCGGTGTCCTCCAATGTGGGGGCC
TACATGCAGCCCGGAGCACGAGAGAACATTGCCTACCTCACCCACGTAGAGCGGAGGAAGGACTTCCAGTACGAGGCCAT
GCAGGAGCGACGGGAGGCTGAGAACATGGCCCAGAGGGGCATTGGCATGGCCGCCGGCTCCATGCCCATGAACTTTAAGG
ACCTCATTGAGACCAAGGCTGAGGAACACAACATCGTCTTCATGCCCATCATCGGGAAGCGACACGAAGGGAAGCAGCTC
TACACCTTTGGCCCCATCGTCATGTACATTGACCGGGGAGTGGTCTTCATCCAGGGCAAGAAGACCTGGGTGCCCACCTC
CCTGCAGAGCCTGATTGACATGGCCAAGTAG
ORF - retro_ecab_65 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.23 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSLSHLYRDGEGRMDDDDDERENFEITDWDLQNEFNPNRQRHWQTKEEATYGVWAERDSDEERPSFGGKR |
| MSL.H.YRDGEG.MDDD.DERENFEITDWDLQNEFNPNRQRHW.TKEEAT.GVW.ER.SD.ERPSFGGKR | |
| Retrocopy | MSLPHFYRDGEGHMDDDEDERENFEITDWDLQNEFNPNRQRHWRTKEEATNGVWTERASDGERPSFGGKR |
| Parental | ARDYSAPVNFISAGLKKGAAEEAELEDSDDEEKPVKQDDFPKDYGPKKLKTGGNFKPSQKGFAGGTKSFM |
| ARD.SAPV.FISAGLKK.AAEEAELEDSDDEE.PVKQDDFPKD.GPKKLKTGGNF.PSQKGFAGGTKSFM | |
| Retrocopy | ARDCSAPVSFISAGLKKRAAEEAELEDSDDEEEPVKQDDFPKDFGPKKLKTGGNFTPSQKGFAGGTKSFM |
| Parental | DFGSWERHTKGIGHKLLQKMGYVPGRGLGKNAQGIINPIEAKQRKGKGAVGAYGSERTPQALQDFPVVDS |
| DFGSWERHTKGIG.KLLQKMGYVPGRGLGKNAQGII.PIEAKQRKG.GAVGAYGSERTPQ.LQDFPVV.S | |
| Retrocopy | DFGSWERHTKGIGQKLLQKMGYVPGRGLGKNAQGIIKPIEAKQRKGRGAVGAYGSERTPQSLQDFPVVHS |
| Parental | EEEAEEEFQKELSQWRKDPSGSKKKPKYSYKTVEELKAKGRVSKKLTAPQKELSQVKVIDMTGREQKVYY |
| .EEAEE.FQKELSQWR..PSGSKKKPKY.YKTVEELKAKGRVSK.LTAP.KELSQVKVIDMTGREQKVY. | |
| Retrocopy | KEEAEE-FQKELSQWRQGPSGSKKKPKYFYKTVEELKAKGRVSKQLTAPEKELSQVKVIDMTGREQKVYF |
| Parental | SYSQISHKHSVPDDGLPLQSPQPPQPGKEAKAPGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVV |
| SYSQISHKH.VP.DGL.LQSPQPPQPGKEAKAPGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVV | |
| Retrocopy | SYSQISHKHNVPGDGLLLQSPQPPQPGKEAKAPGFALPELEHNLQLLIDLTEQEIIQNDRQLQYERDMVV |
| Parental | NLSHELEKMSEVLDHEERLISNLSKVLEMVEECERRMQPNCSDPLTLDECARVFETLQDKYYEEYRMSDR |
| NLSHELEKMSEVLDHEERLIS.LSKVLEMVEECER.MQPNCSDPLTLD.C...FETL.DKYYE.Y.MS.R | |
| Retrocopy | NLSHELEKMSEVLDHEERLISKLSKVLEMVEECERCMQPNCSDPLTLDGCTHIFETLRDKYYEDYWMSHR |
| Parental | VDLAVAIVYPLMKEYFKEWDPLKDCTYGTEIISKWKSLLENDQLLSHGGQDLSADAFHRLIWEVWMPFVR |
| VDL.VAIVYPLMKEYFKEWDPLKDCTYGTEIISKWKSLLENDQLLSHG.QDL.ADAFHRLIWEVWMP.VR | |
| Retrocopy | VDLTVAIVYPLMKEYFKEWDPLKDCTYGTEIISKWKSLLENDQLLSHGEQDLLADAFHRLIWEVWMPLVR |
| Parental | NIVTQWQPRNCDPMVDFLDSWVHIIPVWILDNILDQLIFPKLQKEVENWNPLTDTVPIHSWIHPWLPLMQ |
| NIVTQWQPRNCDPMVDFLDSWVHIIPVWILD.ILDQLIFPKLQKEVENWNPLTDT.PIHSWIHPWLPLMQ | |
| Retrocopy | NIVTQWQPRNCDPMVDFLDSWVHIIPVWILDTILDQLIFPKLQKEVENWNPLTDTIPIHSWIHPWLPLMQ |
| Parental | ARLEPLYSPIRSKLSSALQKWHPSDSSAKLILQPWKEVFTPGSWEAFMVKNIVPKLGMCLGELVINPHQQ |
| ARLE.LYS.IRSKLS.ALQKWHPSDSSAKLILQPWKEVFTPGSWEAFMVKNIVPKL.MCLGELVINPHQQ | |
| Retrocopy | ARLERLYSSIRSKLSRALQKWHPSDSSAKLILQPWKEVFTPGSWEAFMVKNIVPKLEMCLGELVINPHQQ |
| Parental | HMDAFYWVIDWEGMISVSSLVGLLEKHFFPKWLQVLCSWLSNSPNYEEITKWYLGWKSMFSDQVLAHPSV |
| HMDAFYWVI.WEGMISVSSLVGLLEKHFFPKWLQVLCSWLSNSPNYE.ITKWYLGWKS.FSDQVLAH.SV | |
| Retrocopy | HMDAFYWVITWEGMISVSSLVGLLEKHFFPKWLQVLCSWLSNSPNYEAITKWYLGWKSVFSDQVLAHLSV |
| Parental | KDKFNEALDIMNRAVSSNVGAYMQPGARENIAYLTHTERRKDFQYEAMQERREAENMAQRGIGVAASSVP |
| .DKFNEALDIMNRAVSSNVGAYMQPGARENIAYLTH.ERRKDFQYEAMQERREAENMAQRGIG.AA.S.P | |
| Retrocopy | NDKFNEALDIMNRAVSSNVGAYMQPGARENIAYLTHVERRKDFQYEAMQERREAENMAQRGIGMAAGSMP |
| Parental | MNFKDLIETKAEEHNIVFMPVIGKRHEGKQLYTFGRIVIYIDRGVVFVQGEKTWVPTSLQSLIDMAK |
| MNFKDLIETKAEEHNIVFMP.IGKRHEGKQLYTFG.IV.YIDRGVVF.QG.KTWVPTSLQSLIDMAK | |
| Retrocopy | MNFKDLIETKAEEHNIVFMPIIGKRHEGKQLYTFGPIVMYIDRGVVFIQGKKTWVPTSLQSLIDMAK |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 0 .18 RPM | 28 .81 RPM |
| SRP021940_cerebellum | 0 .26 RPM | 92 .96 RPM |
| SRP021940_embryo | 0 .61 RPM | 143 .95 RPM |
| SRP021940_placental_villous | 0 .34 RPM | 96 .41 RPM |
| SRP021940_synovial_membrane | 0 .71 RPM | 122 .55 RPM |
| SRP021940_testis | 11 .45 RPM | 120 .98 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_65 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_65 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_65 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000016242 | 1 retrocopy |
retro_ecab_65 ,
|
| Myotis lucifugus | ENSMLUG00000008015 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000010710 | 1 retrocopy |