RetrogeneDB ID: retro_chof_314

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: GeneScaffold_7238:26162..27071(+)
• Located in intron of: ENSCHOG00000011222

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: KHDRBS1
• Ensembl ID: ENSCHOG00000006973
• Aliases: None
• Description: KH domain containing, RNA binding, signal transduction associated 1 [Source:HGNC Symbol;Acc:18116]

Sequence

>retro_chof_314
ATGCAGCGCCGGGACGACCCCGCCGCGCGCATGATCCGGTCTTCGGGCCGCAGCGGTTCCATGGACCCCTCGGGAGCCCA
CTCCTCAGTGCGTCAGGCGCCGTCTCGGCAGCCGCCGCTGCCTCACCGGTCCCGGGGAGGCGGAGGAGGATCCCGAGGGG
CCGCCCGGGCTTCGCCCGCCACGCAGCCGCCACCGTTGCTACCGCCCTCGGCCACGGGTCCCGACGCGACAGTGGGCGGT
CCGGCGCCGACCCCGCTGCTGCCCCCTTCAGCCACTGCCTCCGTCAAGATGGAGCCGGAGAACAAGTACCTGCCGGAACT
CATGGCCGAGAAGGACTCGCTCGACCCGTCCTTCACTCATGCCATGCAGTTGCTGACGGCAGAAATTGAGAAGATTCAGA
AAGGGGATTCAAAAAAGGATGATGATGAGAATTACTTGGATTTATTTTCTCACAAGAACATGAAGCTGAAGGAGCGGGTG
CTGATACCTGTCAAGCAGTATCCCAAGTTTAATTTTGTGGGGAAGATTCTTGGACCACAAGGGAATACAATCAAAAGACT
GCAAGAGGAGACTGGTGCAAAGATCTCTGTGTTGGGAAAGGGCTCAATGAGAGACAAAGCCAAGGAGGAAGAGCTGCGCA
AAGGTGGAGACCCCAAATATGCCCACCTGAATATGGATCTGCATGTTTTCATTGAAGTCTTTGGACCCCCGTGTGAGGCT
TATGCTCTTATGGCCCATGCCATGGAGGAAGTAAAGAAGTTTCTAGTACCAGATATGATGGATGATATCTGCCAGGAACA
GTTTCTAGAGCTGTCCTACTTGAATGGAGTACCTGAGCCCACCCGTGGACGTGGGGTGCCAGTGAGAGGCCGAGGAGCTG
CACCTCCCCCTCCACCTGTTCCCAGGGGC

Alignment

ORF - retro_chof_314 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.34 %
• Parental protein coverage: 68.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQRRDDPAARMIRSSGRSGSMDPSGAHSSVRQAPSRQPPLPHRSRGGGGGSRGAARASPATQPPPLLPPS
          MQRRDDPAARMIRSSGRSGSMDPSGAHSSVRQAPSRQPPLPHRSRGGGGGSRGAARASPATQPPPLLPPS
Retrocopy MQRRDDPAARMIRSSGRSGSMDPSGAHSSVRQAPSRQPPLPHRSRGGGGGSRGAARASPATQPPPLLPPS

Parental  ATGPDATVGGPAPTPLLPPSATASVKMEPENKYLPELMAEKDSLDPSFTHAMQLLTAEIEKTQKGDSKKD
          ATGPDATVGGPAPTPLLPPSATASVKMEPENKYLPELMAEKDSLDPSFTHAMQLLTAEIEK.QKGDSKKD
Retrocopy ATGPDATVGGPAPTPLLPPSATASVKMEPENKYLPELMAEKDSLDPSFTHAMQLLTAEIEKIQKGDSKKD

Parental  DDENYLDLF-HKNMKLKERVLIPVKQYPKFNFVGKILGPQGNTIKRLQEETGAKISVLGKGSMRDKAKEE
          DDENYLDLF.HKNMKLKERVLIPVKQYPKFNFVGKILGPQGNTIKRLQEETGAKISVLGKGSMRDKAKEE
Retrocopy DDENYLDLFSHKNMKLKERVLIPVKQYPKFNFVGKILGPQGNTIKRLQEETGAKISVLGKGSMRDKAKEE

Parental  ELRKGGDPKYAHLNMDLHVFIEVFGPPCEAYALMAHAMEEVKKFLVPDMMDDICQEQFLELSYLNGVPEP
          ELRKGGDPKYAHLNMDLHVFIEVFGPPCEAYALMAHAMEEVKKFLVPDMMDDICQEQFLELSYLNGVPEP
Retrocopy ELRKGGDPKYAHLNMDLHVFIEVFGPPCEAYALMAHAMEEVKKFLVPDMMDDICQEQFLELSYLNGVPEP

Parental  TRGRGVPVRGRGAAPPPPPVPRG
          TRGRGVPVRGRGAAPPPPPVPRG
Retrocopy TRGRGVPVRGRGAAPPPPPVPRG

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_314 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006973	1 retrocopy	retro_chof_314 ,
Callithrix jacchus	ENSCJAG00000006580	1 retrocopy	retro_cjac_1185,
Dasypus novemcinctus	ENSDNOG00000003761	1 retrocopy	retro_dnov_2549,