RetrogeneDB ID: | retro_dnov_2198 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_55032:557..851(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | ITGB1BP1 | ||
| Ensembl ID: | ENSDNOG00000008930 | ||
| Aliases: | None | ||
| Description: | integrin beta 1 binding protein 1 [Source:HGNC Symbol;Acc:23927] |
Retrocopy-Parental alignment summary:
>retro_dnov_2198
TCTGTCAATTCCAGCCTTGGGGGACTTTACAGTCCACTACTGTAGCCACCTTGATACAGATTCTAGCAAAAGCTCAGGAC
AAAGCAACAGTTATTCAGATACCTGTGCAGAATTCTGGAAAAGAATATGTTTGTGCCATTGAGAAACTGAAAGTCTCTGA
GGGAAAGAAGTCTTGAAGGGCTGCTAGACCTGATAAAATTTACAGATGTTACCCAGCAAGTTGGAAAGTTGTCTTTTGTT
CTTCTGAAGGAAGAATTTATTATGGGAGTTTCCAAGTACGGTATAAAAGTATCA
TCTGTCAATTCCAGCCTTGGGGGACTTTACAGTCCACTACTGTAGCCACCTTGATACAGATTCTAGCAAAAGCTCAGGAC
AAAGCAACAGTTATTCAGATACCTGTGCAGAATTCTGGAAAAGAATATGTTTGTGCCATTGAGAAACTGAAAGTCTCTGA
GGGAAAGAAGTCTTGAAGGGCTGCTAGACCTGATAAAATTTACAGATGTTACCCAGCAAGTTGGAAAGTTGTCTTTTGTT
CTTCTGAAGGAAGAATTTATTATGGGAGTTTCCAAGTACGGTATAAAAGTATCA
ORF - retro_dnov_2198 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.51 % |
| Parental protein coverage: | 55.68 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | SVDSSLGGLS-RSSTVASL-DTDSTRSSGQSNNNSDTCAEFRIK-YVGAIEKLKVSEGK-SLEGPLDLIN |
| SV.SSLGGL...S.TVA.L.DTDS..SSGQSN..SDTCAEF....YV.AIEKLKVSEGK.SLEG.LDLI. | |
| Retrocopy | SVNSSLGGLY<QSTTVATL<DTDSSKSSGQSNSYSDTCAEFWKR>YVCAIEKLKVSEGK>SLEGLLDLIK |
| Parental | YIDVAQQDGKLPFVPLEEEFIMGVSKYGIKVS |
| ..DV.QQ.GKL.FV.L.EEFIMGVSKYGIKVS | |
| Retrocopy | FTDVTQQVGKLSFVLLKEEFIMGVSKYGIKVS |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 9 .72 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 25 .57 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .89 RPM |
| SRP012922_kidney | 0 .00 RPM | 11 .50 RPM |
| SRP012922_liver | 0 .00 RPM | 6 .81 RPM |
| SRP012922_lung | 0 .00 RPM | 20 .62 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 8 .83 RPM |
| SRP012922_spleen | 0 .00 RPM | 21 .86 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_2198 was not experimentally validated.