RetrogeneDB ID: retro_chof_395

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_103460:3080..3787(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ABHD3
• Ensembl ID: ENSCHOG00000000121
• Aliases: None
• Description: abhydrolase domain containing 3 [Source:HGNC Symbol;Acc:18718]

Sequence

>retro_chof_395
TGTGTGGTTTTTAACAACACTGGAGTGGCGCGGGAGAGCATCCTGACTCAAAGGACTTACTGTTTTGCTAACACCGAAGA
CTTGGAAAGTTATTCAACACGTACACAGCCTGTACCCTTTTGTGCTTTTTCTGGCAGCAGAGGTTTTGATGGGAGGAATG
GTTTTAAATCACCTGGACAGAACTGGGCCTAAAACTCCTCTGAGGGCAGCTGTCACTTTTTCAGTTGGTTGGAATACTTT
TGCTTGCTCAGAGTCATTGGAGAAACCACTGAACTGGCTGCTTTTTAATTACTGTTTGACAACAGCCTCTAATCTTCTGT
TAATAAGCACCGACATATATTTGTAAAACAAGTTGACATGGATCATGTCATGAAGGCTAAATCCATCAGAGAGCTTGATA
AATGATTCACATAGGTCGTGTTTGGATGCTGAACACTGGATGATTATTAAACTGATGCCAGTCCAAATCATAGACTTAAG
TCAGTAGGAATTCCTGTGTTGTGTCTAAATTCTGTGGATGATGTTTTCTCACCAAGTCATGCTATTCCAGTAGAAACTGC
TAAGCAAAACCTAGTGTTGCTTTGGTCCTTACTTCTTACTGAGGCCATATTGGTTTTCTGGAGGGAATCTGGCTAAGGTG
ATCCACCTACATGGATTGTGTCTTCAGGCAGTTTGTGCAGGCCATGGTTGAGCATGGACATGAACTC

Alignment

ORF - retro_chof_395 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.16 %
• Parental protein coverage: 58.19 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  CVVFNNRGVAGENLLTPRTYCCANTEDLET-VIHHVHSLYPSVPFLAAGVSMGGMLLLNYLGKTGPKTPL
          CVVFNN.GVA.E..LT.RTYC.ANTEDLE....H.VHSLYP.V.FLAA.V.MGGM..LN.L..TGPKTPL
Retrocopy CVVFNNTGVARESILTQRTYCFANTEDLES>IQH-VHSLYPFVLFLAAEVLMGGM-VLNHLDRTGPKTPL

Parental  RAAVTFSVGWNTFACSESLEKPLNWLLFNYYLTTC-LQSSVNKHRHMFVKQVDMDQVMKAKSIREFDRRF
          RAAVTFSVGWNTFACSESLEKPLNWLLFNY.LTT..L.SSVNKHRH.FVKQVDMD.VMKAKSIRE.D..F
Retrocopy RAAVTFSVGWNTFACSESLEKPLNWLLFNYCLTTA<L*SSVNKHRHIFVKQVDMDHVMKAKSIRELDK*F

Parental  TSVVFGYRTLNDYYTDASPNRRLKSVGIPVLCLNSVDDVFSPSHAIPIETAKQN-PNVALVLTSYGGHIG
          T.VVFG..TL.DY.TDASPN.RLKSVGIPVLCLNSVDDVFSPSHAIP.ETAKQN.P.VALVLTSY.GHIG
Retrocopy T*VVFGC*TLDDY*TDASPNHRLKSVGIPVLCLNSVDDVFSPSHAIPVETAKQN<PSVALVLTSY*GHIG

Parental  FLEGIWPRQSTYMDRVFKQFVQAMVEHGHEL
          FLEGIW.R.STYMD.VF.QFVQAMVEHGHEL
Retrocopy FLEGIWLR*STYMDCVFRQFVQAMVEHGHEL

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_395 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000121	1 retrocopy	retro_chof_395 ,