RetrogeneDB ID: retro_chof_1742

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_372420:548..1178(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT14
• Ensembl ID: ENSCHOG00000007573
• Aliases: None
• Description: keratin 14 [Source:HGNC Symbol;Acc:6416]

Sequence

>retro_chof_1742
ATCCAGGGCGAGAAGGAGACCATGCAAGCCCTCAACGACCGCCTAGCCTCCTACCTGGACAGGGTGAGGAGCCTGGAGAC
TGAGAATCGGAGACTGGAGGGCAAAATTCGGGAACACCTGGAGAAGAAGGGACCCCAGGTCAGGGACTGGAGCCACTACT
TCAAGATCATCGAGGAACTGAGGGCTCAGATCTTTGAGGTTTCTGTGGACAACGCCCGCATCGTTCTGCAGATTGACAAT
GCCCGGCTGGCTGCAGATGACTTCAGAGTCAAGTACGAGACGGAGCTGGCCATGCGCCAGTCTGTGGAGAGCGACATCCA
TGGGCTCCGCAAGGTCATTGATGACACCAACGTCACCCGGCTGCAGCTGGAGACGGAGATCGAGGCTCTCAAAGAGGAGC
TGCTCTTCATGAAGAAGAACCATGAGGAGGAAGTAAAGGGCCTACAAGCGCAGATTGCCAGCTCTGGGCTGACCGTGGAG
GTGGATGCCCCCAAGTCTCAGGACCTGAGCAAGATCATGGCAGACATCCGAGCCCAGTATGACGAGTTGGCTCAGAAGAA
CCGAGAGGAGCTGGACAAGTACTGGTCTCAGCAGATTGAAGAGAGCACCACAGTGGTCACCTCTCAGTCC

Alignment

ORF - retro_chof_1742 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.18 %
• Parental protein coverage: 62.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGSEKITMQNLNDRLASYLDKVRALEEANTDLEVKIRDWYQKQRPAETRDYTPYFNTIEDLRNKIIAANI
          ...EK.TMQ.LNDRLASYLD.VR.LE..N..LE.KIR....K..P...RD...YF..IE.LR..I.....
Retrocopy IQGEKETMQALNDRLASYLDRVRSLETENRRLEGKIREHLEKKGP-QVRDWSHYFKIIEELRAQIFEVSV

Parental  DNSNIVLQIDNARLAADDFRTKFETEQALRMSVEADINGLRRVLDELTLARADLEMQIESLKEELAYLRK
          DN..IVLQIDNARLAADDFR.K.ETE.A.R.SVE.DI.GLR.V.D.....R..LE..IE.LKEEL....K
Retrocopy DNARIVLQIDNARLAADDFRVKYETELAMRQSVESDIHGLRKVIDDTNVTRLQLETEIEALKEELLFMKK

Parental  NHEEEMKSLQGHVGGD-VNVEMDAAPGVDLSRILNEMRDQYEKMAEKNRKDAEDWFFTKTEELNREVVTN
          NHEEE.K.LQ.........VE.DA....DLS.I....R.QY...A.KNR...........EE....V...
Retrocopy NHEEEVKGLQAQIASSGLTVEVDAPKSQDLSKIMADIRAQYDELAQKNREELDKYWSQQIEESTTVVTSQ

Parental  S
          S
Retrocopy S

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_1742 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	ENSCHOG00000007573	1 retrocopy	retro_chof_1742 ,
Choloepus hoffmanni	ENSCHOG00000008497	1 retrocopy	retro_chof_1403,
Tarsius syrichta	ENSTSYG00000014310	1 retrocopy	retro_tsyr_902,