RetrogeneDB ID: | retro_pabe_125 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | X:48585670..48587149(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSPPYG00000020301 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | WASF2 | ||
| Ensembl ID: | ENSPPYG00000001661 | ||
| Aliases: | None | ||
| Description: | WAS protein family, member 2 [Source:HGNC Symbol;Acc:12733] |
Retrocopy-Parental alignment summary:
>retro_pabe_125
AACGAGAACATCGAGCCAAGGCACCTGTGCCGTCAGAGGTTGCCTAGCGTTAGAAGCAAGCTGGAATGCGTGACCAACAT
CACCCTGGCAAATGTCATCCGACAGCTGGGCAGCCTGAGTAAATATGCAGAGGACATTTTTGGAGAGCTCTTTACTCAGG
CAAATACCTTTGCCTCTCGGGTAAGCTCCCTTGCTGAGAGGGTCAACGGACTACAAGTTAAAGTCACTCAGCTGGATCCC
AAGGAAGAAGAAGGGTCACTGCAAGGAATCAACCCCCGAAAAGCCTTCAGAAGCTCCATCATTCAAGACCAGAAGCTTTT
TGACAGAAACTCTCTCCCAGTGCCTGTCTTAGAAACATACAAGACCTGTGATACTCCTCCCCCTCTCAACAATCTTACCC
CTTACAGGGAAGATGGAAAAGAGGCACTCAAATTCTACACAGACCCTTCATACTTCTTTGATCTTTGGAAGGAGAAGATG
CTGCAGGACACCAAGGATATCATGAAAGAGAAGAGAAAGCATAGGAAAGAAAAGAAAGATAATCCAAATCGAGGGGATGT
AAACCCATGTAAAATCAAGACACGTAAGGAAGAGTGGGAGAAAATTAAGATGGGGCAAGAATTTGTGGAGTCCAAAGAAA
AGGTGGGGCCTTCTGGGTATCCACCCACCTTGGTGTACCAGAATGGCAGCATTGGCTGTGTTGAAAACATGGATGCAAGT
AGCTATCCACCACCATCACAGTCAGACTCTGCTTCTTCACCTTCTCCTTCCTTCGAGGACAACTTGCCTCCTCCACCAGC
AGAATTCAGTTACCCAGTGGACAACCAAAGAGGGTCTGGTTTGGCTGGACCCAAAAGATCCAGTGTGGTCAGCCCAAGCC
ATCCACCACCAGTTCCTCCTCTAGGCTCTCCACCAGGCCCTAAACCCGGGTTTGCTCCACCACCTGCCCCTCCACCACCT
CCACCTCCAATGATAGGCATCCCACCTCCACCACTGCCTGTAGGATTTGGGTCTCCAGGGACGCCTCCACCACCCTCACC
CCCATCTTTCCCACCTCACCCTGATTTTGCTGCCCCTCCACCTCCTCCTCTACCACCGGCAGCTGACTACCCAACTCTGC
CACCACCTCCCTTGTCCCAGCCAACAGGAGGATCACCTCCTTCTCCCCCTCCTCCTCCTCCTCCGGGGCCCCCTCCTCCC
CCTTTCACTGGTGCAGATGGCCAGCCTGCTCTACCACCACCGCTTTCTGATACCACCAAGTCCAAGTCCTCCTTGCCTGC
CGTAAGCGATGCCCGTAGCGACCTGCTTTCAGCCATCCGTCAAGGTTTTCAGCTGCGCAGGGTTGAGGAGCAGCAGGAAC
AAGAGAAGCGGGATGTCGTGGGCAATGACGTGGCCACCGTCGTGTCTCGTCTCATTGCTGTTGAGTACAGTGACTCAGAA
GATGACTCCTCTGAATTTGATGAGGACGACTGGTCCGAT
ORF - retro_pabe_125 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.66 % |
| Parental protein coverage: | 82.46 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | NIEPRHLCRQTLPSVRSELECVTNITLANVIRQLGSLSKYAEDIFGELFTQANTFASRVSSLAERVDRLQ |
| NIEPRHLCRQ.LPSVRS.LECVTNITLANVIRQLGSLSKYAEDIFGELFTQANTFASRVSSLAERV..LQ | |
| Retrocopy | NIEPRHLCRQRLPSVRSKLECVTNITLANVIRQLGSLSKYAEDIFGELFTQANTFASRVSSLAERVNGLQ |
| Parental | VKVTQLDPKEEEVSLQGINTRKAFRSSTIQDQKLFDRNSLPVPVLETYNTCDTPPPLNNLTPYRDDGKEA |
| VKVTQLDPKEEE.SLQGIN.RKAFRSS.IQDQKLFDRNSLPVPVLETY.TCDTPPPLNNLTPYR.DGKEA | |
| Retrocopy | VKVTQLDPKEEEGSLQGINPRKAFRSSIIQDQKLFDRNSLPVPVLETYKTCDTPPPLNNLTPYREDGKEA |
| Parental | LKFYTDPSYFFDLWKEKMLQDTKDIMKEKRKHRKEKKDNPNRGNVNPRKIKTRKEEWEKMKMGQEFVESK |
| LKFYTDPSYFFDLWKEKMLQDTKDIMKEKRKHRKEKKDNPNRG.VNP.KIKTRKEEWEK.KMGQEFVESK | |
| Retrocopy | LKFYTDPSYFFDLWKEKMLQDTKDIMKEKRKHRKEKKDNPNRGDVNPCKIKTRKEEWEKIKMGQEFVESK |
| Parental | EKLGTSGYPPTLVYQNGSIGCVENVDASSYPPPPQSDSASSPSPSFSEDNLPPPPAEF |
| EK.G.SGYPPTLVYQNGSIGCVEN.DASSYPPP.QSDSASSPSPSF.EDNLPPPPAEF | |
| Retrocopy | EKVGPSGYPPTLVYQNGSIGCVENMDASSYPPPSQSDSASSPSPSF-EDNLPPPPAEF |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 1 .11 RPM | 7 .80 RPM |
| SRP007412_cerebellum | 0 .73 RPM | 7 .54 RPM |
| SRP007412_heart | 8 .07 RPM | 5 .15 RPM |
| SRP007412_kidney | 3 .18 RPM | 14 .78 RPM |
| SRP007412_liver | 1 .32 RPM | 4 .74 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_125 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_125 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_125 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_4682 |
| Gorilla gorilla | retro_ggor_2904 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000158195 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000004436 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000009635 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000001661 | 1 retrocopy |
retro_pabe_125 ,
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