RetrogeneDB ID:

retro_chof_2631

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_92581:1851..2554(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:STX7
Ensembl ID:ENSCHOG00000010117
Aliases:None
Description:syntaxin 7 [Source:HGNC Symbol;Acc:11442]


Retrocopy-Parental alignment summary:






>retro_chof_2631
ATGTCTCACCCTCCGGGAATTGGTGGCGACCCTGCCCGGTGGCCCAGGCCATCTCTTCCAACACCCAGAGATCACACACT
GTTGTAATACAAAGGACCCCGAATCAACGTGGAACACCCCAAGCTTCTCCCAAGTTGACGCAACAGCTGTCACAGAAGCA
GAAGTGCATAAACTAACTTGCCAAAGAAACAGAAACATGCACGGAATAGTTGGGTCTCTTCCCAGCCAGCCAACAGTGGC
AAAGTAAAAGACAGACGGAGAACTCCGTGGCTGAATTCACAACCTCACTGATGAGCTTGCAGAAGGTCCAGAGGCCACCT
AATGAAAGAGAGGAGGAGTCCGTTGCTCGAGAAAGAGCCAGCTCCAGAGTATCTGGTGGTTTTCCAGGAGACAGTCCAAA
AGAAAGGAATCTTGTATCCTGGGAAATCCAAACTCAACCTCAAGTGCAAGTGCCAGATGAAGAAATTACAGAGGATCACT
CCACCTCATTCACGAGAGAGGGTCTTCTATTAGGCAACTTGAAGCTGATATTACGGATATTAGTGCAATATTTAAAGATT
TGGGAATGATGATTCATCAACAAGGAGATGCGATAGATAGCACAGAAGCCAATGTAGAAAACTCTGAGGTGCCCGTTCAA
CAAGCAAACCAACAGCTATCAGGAGCAGCAGCTTACCAGTGCAAATCCAGAAAAACCCTGTGT

ORF - retro_chof_2631 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.8 %
Parental protein coverage: 91.92 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMSYTPGIGGDPAQ-LAQRISSNIQKITQCSMEIQRTLNQLGTPQDSPELRQQLQQKQQYTNQLAKETDKL
MS..PGIGGDPA...AQ.ISSN.Q........IQRT.NQ.GTPQ.SP.L.QQL.QKQ...N.LAKET...
RetrocopyMSHPPGIGGDPAR<VAQAISSNTQR--SHTVVIQRTPNQRGTPQASPKLTQQLSQKQKCIN*LAKETETC
ParentalIKEFGSLPTTPSEQRQRKIQKDRLVAEFTTSLTNFQKVQRQAAEREKEFVARVRASSRVSGGFPEDTSKE
....G..P...S.Q.Q.K.Q....VAEFTTSL...QKVQR...ERE.E.VAR.RASSRVSGGFP.D..KE
RetrocopyTE*LGLFPA--SQQWQSKRQTENSVAEFTTSLMSLQKVQRPPNEREEESVARERASSRVSGGFPGDSPKE
ParentalRNLVSWESQTQPQVQVQDEEIMED-DLRLIQERESSIRQLEADIMDINEIFKDLGMMIHEQGEVIDSIEA
RNLVSWE.QTQPQVQV.DEEI.ED..L.LI.ER.SSIRQLEADI.DI..IFKDLGMMIH.QG..IDS.EA
RetrocopyRNLVSWEIQTQPQVQVPDEEITED<SLHLIHERGSSIRQLEADITDISAIFKDLGMMIHQQGDAIDSTEA
ParentalNTENAEMHVQPANQQLSRAAGYQRKSRKTLC
N.EN.E..VQ.ANQQLS.AA.YQ.KSRKTLC
RetrocopyNVENSEVPVQQANQQLSGAAAYQCKSRKTLC

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_2631 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 6 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000010117 3 retrocopies
retro_chof_1503, retro_chof_2631 , retro_chof_829,
Dasypus novemcinctus ENSDNOG000000002951 retrocopy
Felis catus ENSFCAG000000022921 retrocopy
Myotis lucifugus ENSMLUG000000043011 retrocopy
Sarcophilus harrisii ENSSHAG000000144401 retrocopy
Tursiops truncatus ENSTTRG000000098531 retrocopy



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