RetrogeneDB ID: retro_chof_26

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_14176:17026..18046(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000006039
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CCNI
• Ensembl ID: ENSCHOG00000003915
• Aliases: None
• Description: cyclin I [Source:HGNC Symbol;Acc:1595]

Sequence

>retro_chof_26
AATGTTTCCCCATCCCAGAGAGATGAAGTGATTCAGTGGTTGGCCAAACTCAAGTACCAATTCAACCTTTACCCAGAAAC
GTTTGCCCTGGCTAGCAGTCTTTTGGACAGGTTTTTAGCTACTGTAAAGGCTCACCCAAAATACCTGAGTTGTATTGCAA
TCAGCTGTTTTTTCCTAGCTGCCAAGACTGTTGAGGAGGATGAGAGAATTCCAGTACTGAAGGTATTGGCAAGAGACAGT
TTCTGTGGATGTTCTTCCTCTGAAATTCTGAGAATGGAGAGAATTATTCTGGATAAGCTGAATTGGGATCTTCACACAGC
TACACCATTGGATTTTCTTCACATTTTCCATGCCATTGCAGTGTCAACTAGGCCTCAGTTACTCTTCAGTTTGCCCAAAC
TGAGCCCATCCCAACATTTGGCGGCCCTTACCAAGCAACTACTTAAGTGTATGGCCTGCAATCAACTTTTGCAGTTCAAA
GGATCTATGCTTGCTCTGGCCATGGTTAGTTTGGAAATGGAGAAACTTATTCCTGATTGGCTCTCTCTTACAATTGAATT
GCTTCAGAAAGCACAGATGGATAGCTCCCAGTTGATCCACTGTCGGGAGTTTGTGGCACATCACCTTTCTACTCTGCAGT
CTTCTCTGCCTCTAAATTCCGTTTATGTCTACCGTCCCCTCAAGCACACCCTGGTGACCTGTGACAAAGGAGTGTTCAGA
TTACATCCCTCCTCTGTCCCAGGCCCAGACTTCTCCAAGGACAACAGCAAACCAGAAGTGCCAGTCAGAAGTACAGCAGC
CTTCTGCCATCATCTCCCAGCTGCCAGTGGGTGCAAACATACCTCTGCTAAACGCAAAGTAGAGGAAATGGAAGTGGATG
ATTTCTATGATGGAATCAAGCTGCTCTATAATGAAGATAGTGCTTCAGAAAACGTGGGTTCTGTGTGTGGCACTGATTTA
TCAAGGCAAGAGGGACATGGTTCCCCTTGCCCACCTCTGCAACCTGTTTCTGTCATGTAG

Alignment

ORF - retro_chof_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.23 %
• Parental protein coverage: 89.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NVSPSQRDEVIQWLAKLKYQFNLYPETFALASSLLDRFLATVKAHPKYFFCIAISCFFLAAKTVEEDERI
          NVSPSQRDEVIQWLAKLKYQFNLYPETFALASSLLDRFLATVKAHPKY..CIAISCFFLAAKTVEEDERI
Retrocopy NVSPSQRDEVIQWLAKLKYQFNLYPETFALASSLLDRFLATVKAHPKYLSCIAISCFFLAAKTVEEDERI

Parental  PVLKVLARDSFCGCSSSEILRMERIMLDKLNW-LHTATPLDFLHIFHAIAVSTRPQLLFSLPKLSPSQHL
          PVLKVLARDSFCGCSSSEILRMERI.LDKLNW.LHTATPLDFLHIFHAIAVSTRPQLLFSLPKLSPSQHL
Retrocopy PVLKVLARDSFCGCSSSEILRMERIILDKLNWDLHTATPLDFLHIFHAIAVSTRPQLLFSLPKLSPSQHL

Parental  AALTKQLLKCMACNQLLQFKGSMLALAMVSLEMEKLIPDWLSLTIELLQKAQMDSSQLIHCREFVAHYLS
          AALTKQLLKCMACNQLLQFKGSMLALAMVSLEMEKLIPDWLSLTIELLQKAQMDSSQLIHCREFVAH.LS
Retrocopy AALTKQLLKCMACNQLLQFKGSMLALAMVSLEMEKLIPDWLSLTIELLQKAQMDSSQLIHCREFVAHHLS

Parental  TLQSSLPLNSVYVYRPLKHTLVTCDKGVFRLHPSSVPGPDFSKDNSKPEVPVRSTAAFCHHLPAASGCKH
          TLQSSLPLNSVYVYRPLKHTLVTCDKGVFRLHPSSVPGPDFSKDNSKPEVPVRSTAAFCHHLPAASGCKH
Retrocopy TLQSSLPLNSVYVYRPLKHTLVTCDKGVFRLHPSSVPGPDFSKDNSKPEVPVRSTAAFCHHLPAASGCKH

Parental  TSAKRKVEEMEVDDFYDGIKRLYNEDSASENVGSVCGTDLSRQEGHGSPCPPLQPVSVM
          TSAKRKVEEMEVDDFYDGIK.LYNEDSASENVGSVCGTDLSRQEGHGSPCPPLQPVSVM
Retrocopy TSAKRKVEEMEVDDFYDGIKLLYNEDSASENVGSVCGTDLSRQEGHGSPCPPLQPVSVM

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_26 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000600	1 retrocopy	retro_chof_1457,
Choloepus hoffmanni	ENSCHOG00000003915	2 retrocopies	retro_chof_2262, retro_chof_26 ,