RetrogeneDB ID: | retro_cfam_429 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 11:52990350..52990815(+) | ||
| Located in intron of: | ENSCAFG00000002334 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IRAK1BP1 | ||
| Ensembl ID: | ENSCAFG00000002793 | ||
| Aliases: | None | ||
| Description: | interleukin-1 receptor-associated kinase 1 binding protein 1 [Source:HGNC Symbol;Acc:17368] |
Retrocopy-Parental alignment summary:
>retro_cfam_429
TGCTGCTACCTGGACTACATCACACAGAACCTCCAGCAGCAGTGTCTGCAGACAGAAAATGTACCTGTGACAAAGGGTTT
TAGGAGAGTGGAAAATGCTTATCATGTGGAAGCAGAGCTCTGCAGTACATTTACTGAATTTAGAAAAATGCAAAATATTT
GTAACTTTCTTGTTGAAAAGCTAGATAGCTCTGTTGTCATCAGCCAACCCCAGTTCTGTTATACTCCAGGTTCTGTTGAG
AATCTAAGATGGCAAGCTTGTTTTGTTGTGAACGTGTGATGCAAAGCTCAAGTCTATAACCTTATTGACCAAATTCTGGG
AAAGTCTTTATTCATCAAAAAAAGAAACAAAAGAATGGGAAGGCTGAATAGATGATCCCAGTCATCCAGATTCTCAAGTT
CATTAACTGTACAACAAAAAAATCACAGTGCAAAAATATATGCTGCTTCAAAAGTATTTATAACT
ORF - retro_cfam_429 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.5 % |
| Parental protein coverage: | 61.15 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | CRRLDYITQSLRQQGLQAENVTVTKDFRRVENAYHMEAEVCITFTEFGKMQNICNFLVEKLDSSVVISQP |
| C..LDYITQ.L.QQ.LQ.ENV.VTK.FRRVENAYH.EAE.C.TFTEF.KMQNICNFLVEKLDSSVVISQP | |
| Retrocopy | CCYLDYITQNLQQQCLQTENVPVTKGFRRVENAYHVEAELCSTFTEFRKMQNICNFLVEKLDSSVVISQP |
| Parental | QFYHTPGSVENLRRQACLVAVENAWRKAQEVCNLVGQTLGKPLLIKEEETKEWEGQIDDLQSSRLSSS-L |
| QF..TPGSVENLR.QAC.V...N...KAQ.V.NL..Q.LGK.L.IK........G.......S...SS.L | |
| Retrocopy | QFCYTPGSVENLRWQACFVV--NV*CKAQ-VYNLIDQILGKSLFIKKRNKR--MGRLNR*SQSSRFSSSL |
| Parental | TVQQKIKSATIHAASKVFIT |
| TVQQK..SA.I.AASKVFIT | |
| Retrocopy | TVQQKNHSAKIYAASKVFIT |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .00 RPM | 15 .04 RPM |
| SRP017611_brain | 0 .00 RPM | 10 .32 RPM |
| SRP017611_kidney | 0 .00 RPM | 9 .11 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_429 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_429 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_429 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000012945 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000002793 | 1 retrocopy |
retro_cfam_429 ,
|
| Monodelphis domestica | ENSMODG00000018444 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000001488 | 1 retrocopy |