RetrogeneDB ID: | retro_sara_22 | ||
Retrocopy location | Organism: | Shrew (Sorex araneus) | |
| Coordinates: | scaffold_230299:40197..42579(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSARG00000000740 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TLR1 | ||
| Ensembl ID: | ENSSARG00000004368 | ||
| Aliases: | None | ||
| Description: | toll-like receptor 1 [Source:HGNC Symbol;Acc:11847] |
Retrocopy-Parental alignment summary:
>retro_sara_22
ATGACAAAAGACAATGGAGTCATCCTCAGAAATTTTGTTTTTCTTGTGACTTTCACATCTGAAGTTACAACCCTATTCTC
TGATAAAAATGAATTTGCAGTTGACATGTCAAATGTAGGCCTTACTCATGTTCCAGAGGACTTGCCACTCAAGACTGAAG
TCTTAGATATGTCTCAAAACTATATAGCTGAACTTCACCTCTCTGATTTCCGATATCTGCCGAAGCTGAAAGTTTTAAGT
CTTTCCCACAATAAACTGTGGTACCTTGATTTCAGTATTTTCAAGTTCAACTTGGATTTGGAATATTTGGATTTGTCTTA
TAATCAGTTGAAGAGCATTACTTGCCATTCTATCACAAGTCTTAAGCACCTAGACCTCTCGTTCAATGACTTTGATGCCC
CGCCTATCTGTAAAGAATTTGGCAACTTGACACAACTGATTTTCTTAGGATTAAGTGCTGCAAAGTTACAACTAGGTCTG
CTACCAATTGCTCACTTGCATCTTGAGTGTATCCTTCTGGAGTTAGAACACTATTATGTAAAAGAAAACGAGGGAGAAAG
TTTCCAAGTCTTGAATACAAAAGCACTTCACTTAATTTTTCACCCAAATAGTTTGTTTTCTGTTCAAGCAAACATATCAG
TCAATGCTTTAGAGCGCTTACAACTGACTAATATTAAACTGAATGATGTCAACTGCCAAGTTTTAATGAAATTTTTATCA
GAACTTACTAGAGGTCCAAGTCTTCTGAATTTAACCCTCAACCACATAGAAACAACGTGGAAGTGTTTGGTTAGGGTTTT
TCAATTCCTTTGGCCCAAACCTATAGAATACCTGAATATTTACAATTTAACGATAGTTGAAAGAATTGATAAAGAACATT
TTATTTATTCTAGGACAGCCCTGAAATCACTGAAAATAGAGCATATTACAAATAGAGTTTTCCTTTTCTCCCAGAACACG
TTATACACAGTGTTTTCTGAGATGAACATTATGATGCTCACCCTATCAAACACACCTTTTATCCACATGCTTTGCCCCCA
GGCCCTGAGCACATTCACGTTCTTGAACTTTACCTATAATGTTTTCACAGACAGTGTTTTTCAAAACTGCTCCACTTTGG
TTAAGTTGGAAACTCTCATCTTACAAAAGAATGAATTAAAAGGCCTTTTAAAGGTAGGGCTCATGACGAAGGACATGTTC
TCTTTGAAAATACTGGACGTTAGTGAGAATTCTTTAGAATATCATAGGCAGGAGGGAAATTGCACTTGGGCCTGGAGCAT
TGTGGTGTTAAATCTGTCTTCAAATCTGCTCACGGACTCTGTTTTCAGATGCTTACCTCTCAGGGTCAAGGTTCTCGATC
TTCACAATAACAGAATAAGGAGCATTCCAGATGCTGTCAATAGTCTGGAAGCTTTGGAGGAACTCAATGTTGCCTTCAAC
TCTTTAACCAACTTGCCCGGATGCGGCGCCTTTAGCAGTCTTTCCGTACTGACCATTGACTACAATGCCATTTCCAATCC
AGCCGCTGATTTCTTCCAGAACTGCCAAAAGATCAGGTCACTGAGAGCCGGGAACAACCCATTCCAGTGTACATGTGAGC
TGAGGGAGTTTATCCAGCGTGTAGGCCAAGCACCAAGGGCAGTGGTAGAGGACTGGCCTGCTTCCTACACGTGTGACTAT
CCAGAAAGCGCCAAGGGAACCCCACTGCAGGACTTCCGTGTGTCTCAACTATCGTGCAGCCCCTCTCTGCTGCTGGCCAC
TGTGGTGGGCACTGTGCTGGTGTGGGCCATAGGCACGACCATCCTCTGTGTCTACTTTGATGTGCCCTGGTATCTCAGGA
TGGTGTGCCAGTGGACCCAGACCCGGCGCAGAGCTAGGAATGTAGACTTAGAGGAACTGCAAAGAGCTCTCCAGTTCCAT
GCCTTCATTTCATACAGCGGGCACGATTCTGCCTGGGTGAAGAATGAATTACTGCCCAACTTGGAAAAGGAAGATATCCG
GGTCTGTCTTCATGAGAGAAACTTTGTCCCAGGCAAGAGCATTGTGGAGAACATCATCAACTGCATAGAGAAGAGCTACA
AATCCATCTTTGTCTTGTCTGGCCACTTTGTGCAGAGCGAGTGGTGCCACTATGAGCTCTACTTTGCCCACCACAACTTG
TTTCATGAAGGGTCTGATAACTTAATCCTGATCTTGCTGGAACCCATTGCACAGGACTGCATTCCCAGCAAGTATCACAA
GCTGAGGGCTCTCATGACAAAGAGGACTTATTTGGAGTGGCCCAAGGAAAAAGCCAAACAGGGTCTATTCTGGGCGAACA
TTAAAGCTGCTTTCAATGTGAAATTAACGTTGATGACAGAAAACAACGTGGGAGCATCTTTT
ORF - retro_sara_22 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.31 % |
| Parental protein coverage: | 99.23 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTKGNSNIYHLAVIIILIL-KIRVHLSDESEFLVNRSKTGLTHVPKDLPVETTILELSQNSISELHTSDF |
| MTK.N..I....V.............SD..EF.V..S..GLTHVP.DLP..T..L..SQN.I.ELH.SDF | |
| Retrocopy | MTKDNGVILRNFVFLVTFTSEVTTLFSDKNEFAVDMSNVGLTHVPEDLPLKTEVLDMSQNYIAELHLSDF |
| Parental | LPLSKLKVLIISHNRIQYLNISVFKFNQELVYLDLSHNELETISCHPIENLKHLDLSFNAFDALPICEDF |
| ..L.KLKVL..SHN...YL..S.FKFN..L.YLDLS.N.L..I.CH.I..LKHLDLSFN.FDA.PIC..F | |
| Retrocopy | RYLPKLKVLSLSHNKLWYLDFSIFKFNLDLEYLDLSYNQLKSITCHSITSLKHLDLSFNDFDAPPICKEF |
| Parental | GSMTQLEFLGLSATRLQKSVMQTIAHLNIKKMLLVLGESYGEEEDPESLQHINTESLHIIFPTEKDFHFH |
| G..TQL.FLGLSA..LQ......IAHL.....LL.L...Y..E...ES.Q..NT..LH.IF.....F... | |
| Retrocopy | GNLTQLIFLGLSAAKLQLGLLP-IAHLHLECILLELEHYYVKENEGESFQVLNTKALHLIFHPNSLFSVQ |
| Parental | LDVSTSTAVSLELSNMVLPDNRCS-FQNVLLNLQKNPKISNLTLNNIETTWDCFFNILQLVWPTSIEYFS |
| ...S......L.L.N..L.D..C......L..L...P...NLTLN.IETTW.C.....Q..WP..IEY.. | |
| Retrocopy | ANISVNALERLQLTNIKLNDVNCQVLMKFLSELTRGPSLLNLTLNHIETTWKCLVRVFQFLWPKPIEYLN |
| Parental | MTNVTLRHQLNFGNFDYTNTSLKAISIHQLVSYVFKFPQNVVYKILSNMNIPSLTVSSTRMVHMLCPSQS |
| ..N.T.........F.Y..T.LK...I......VF.F.QN..Y...S.MNI..LT.S.T...HMLCP... | |
| Retrocopy | IYNLTIVERIDKEHFIYSRTALKSLKIEHITNRVFLFSQNTLYTVFSEMNIMMLTLSNTPFIHMLCPQAL |
| Parental | SPFLYLDFSNNLLTDMVFKXXXXXXXXXTLILR----KSGLNIIQMTQEMKSLQQLDISQNALRYDVDEG |
| S.F..L.F..N..TD.VF..........TLIL.....K..L....MT..M.SL..LD.S.N.L.Y...EG | |
| Retrocopy | STFTFLNFTYNVFTDSVFQNCSTLVKLETLILQKNELKGLLKVGLMTKDMFSLKILDVSENSLEYHRQEG |
| Parental | NCSWTKSLLSLNMSSNLLTDSVFRCLPLRVKVLDLHNNRIRSIPDAVNSLEALEELNVAFNSLTNLPGCG |
| NC.W..S...LN.SSNLLTDSVFRCLPLRVKVLDLHNNRIRSIPDAVNSLEALEELNVAFNSLTNLPGCG | |
| Retrocopy | NCTWAWSIVVLNLSSNLLTDSVFRCLPLRVKVLDLHNNRIRSIPDAVNSLEALEELNVAFNSLTNLPGCG |
| Parental | AFSSLSVLTIDYNAISNPAADFFQNCQKIRSLRAGNNPFQCTCELREFIQSVGQAPRAVVEDWPASYTCD |
| AFSSLSVLTIDYNAISNPAADFFQNCQKIRSLRAGNNPFQCTCELREFIQ.VGQAPRAVVEDWPASYTCD | |
| Retrocopy | AFSSLSVLTIDYNAISNPAADFFQNCQKIRSLRAGNNPFQCTCELREFIQRVGQAPRAVVEDWPASYTCD |
| Parental | YPESAKGTPLQDFRVSQLSCSPSLLLATVVGTVLVWAIGTTVLCVYFDVPWYLRMVCQWTQTRRRARNVD |
| YPESAKGTPLQDFRVSQLSCSPSLLLATVVGTVLVWAIGTT.LCVYFDVPWYLRMVCQWTQTRRRARNVD | |
| Retrocopy | YPESAKGTPLQDFRVSQLSCSPSLLLATVVGTVLVWAIGTTILCVYFDVPWYLRMVCQWTQTRRRARNVD |
| Parental | LEELQRALQFHAFISYSGHDSAWVKNELLPNLEKEDIRVCLHERNFVPGKSIVENIINCIEKSYKSIFVL |
| LEELQRALQFHAFISYSGHDSAWVKNELLPNLEKEDIRVCLHERNFVPGKSIVENIINCIEKSYKSIFVL | |
| Retrocopy | LEELQRALQFHAFISYSGHDSAWVKNELLPNLEKEDIRVCLHERNFVPGKSIVENIINCIEKSYKSIFVL |
| Parental | SPHFVQSEWCHYELYFAHHNLFHEGSDNLILILLEPIPQYSIPGSYHKLKTLMARRTYLEWPKEKSKHGL |
| S.HFVQSEWCHYELYFAHHNLFHEGSDNLILILLEPI.Q..IP..YHKL..LM..RTYLEWPKEK.K.GL | |
| Retrocopy | SGHFVQSEWCHYELYFAHHNLFHEGSDNLILILLEPIAQDCIPSKYHKLRALMTKRTYLEWPKEKAKQGL |
| Parental | FWFNLRAAINIKL |
| FW.N..AA.N.KL | |
| Retrocopy | FWANIKAAFNVKL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_22 was not experimentally validated.
Retrocopy orthology:
Sorex araneus 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Sorex araneus | ENSSARG00000004368 | 1 retrocopy |
retro_sara_22 ,
|