RetrogeneDB ID: | retro_chof_2502 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_81045:9378..10018(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PPP2CB | ||
| Ensembl ID: | ENSCHOG00000003467 | ||
| Aliases: | None | ||
| Description: | protein phosphatase 2, catalytic subunit, beta isozyme [Source:HGNC Symbol;Acc:9300] |
Retrocopy-Parental alignment summary:
>retro_chof_2502
CTGACTCTTCCTGTGTTATTAAAGATGCAATATCCAGAATTCATTACAATATTGAGAAGAAACCATAAAAGCTAACAAAT
TATCCAAGCATATGGCTTTTAGGTTGAATGTCTATAAAAATATGGAAATGCCAAGGTTTGGAAATAATATTTCACAGATA
TATACGATTATCTTCCACCTACAACTTTAGCAGATGGACAGATATTCTGCCTCCCTGGTGGCCTCCATCTATCCATATAT
ACATTGGATCATATAAGAACCCTGGATCATTTACAAGATGCTCCACATGAGGGTACCACTGTATGATTTGTTATGGTCAG
ATCCAGATGATCATGGTGGGTGGTATCTCCACATGGTGCTGGCTACACATCTGGACAAAACATTTCTAAAAATATTTAAC
CATGCCAATGGTCTCACACTGGTTTCTCATGCTCACCAACTTGTAATGGAGGGATACAATAGGTGTCATGATCAGAATGT
GTTTACTACTGTCAGTGCACCCAATTATTGTTATCAATGCGGAAACCAAGCTGTTATCATGGAATTAGATGACACTTTAA
AATATTACTTCCTTCATTATGACCTAGTGCTTCATTGTGGAGAGCCTCATGATACCCAGTGCACTCCAGACTACTTCCTG
ORF - retro_chof_2502 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.97 % |
| Parental protein coverage: | 69.38 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VTLLVALKVRYPERITILRGNHESRQITQVYGFYDECLRKYGNANVWK-YFTDLFDYLPLTALVDGQIFC |
| .TL.V.LK..YPE.ITILR.NH.S.QI.Q.YGF..ECL.KYGNA.VWK.YFTD..DYLP.T.L.DGQIFC | |
| Retrocopy | LTLPVLLKMQYPEFITILRRNHKS*QIIQAYGF*VECL*KYGNAKVWK*YFTDIYDYLPPTTLADGQIFC |
| Parental | LHGGLSPSIDTLDHIRALDRLQEVPHEG-PMCDLLWSDPDDRGG-WGISPRGAGYTFGQDISET-FNHAN |
| L.GGL..SI.TLDHIR.LD.LQ..PHEG.P..DLLWSDP.D..G.W..SP.GAGYT.GQ.IS...FNHAN | |
| Retrocopy | LPGGLHLSIYTLDHIRTLDHLQDAPHEG>PLYDLLWSDP-DDHG<WVVSPHGAGYTSGQNISKN>FNHAN |
| Parental | GLTLVSRAHQLVMEGYNWCHDRNVVTIFSAPNYCYRCGNQAAIMELDDTLKYSFLQFDPAPRRGEPHVTR |
| GLTLVS.AHQLVMEGYN.CHD.NV.T..SAPNYCY.CGNQA.IMELDDTLKY.FL..D.....GEPH.T. | |
| Retrocopy | GLTLVSHAHQLVMEGYNRCHDQNVFTTVSAPNYCYQCGNQAVIMELDDTLKYYFLHYDLVLHCGEPHDTQ |
| Parental | RTPDYFL |
| .TPDYFL | |
| Retrocopy | CTPDYFL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_2502 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 2 parental genes, and 11 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000003467 | 9 retrocopies |
retro_chof_1247, retro_chof_1521, retro_chof_1556, retro_chof_2112, retro_chof_2267, retro_chof_2502 , retro_chof_251, retro_chof_273, retro_chof_446,
|
| Monodelphis domestica | ENSMODG00000019001 | 2 retrocopies |