RetrogeneDB ID: retro_chof_932

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_17134:5028..5638(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DUSP11
• Ensembl ID: ENSCHOG00000012041
• Aliases: None
• Description: dual specificity phosphatase 11 (RNA/RNP complex 1-interacting) [Source:HGNC Symbol;Acc:3066]

Sequence

>retro_chof_932
CACGCTAACAAAAGTTGGAAAAACTATCTCCCAGTTGGACAATGGATGCCTGGAAATCATTTCATTGCTTTCAATGTTAC
TTTGAAAGAGAATTTTAAGGGAATATTGCACTAGAAGAATGTTTTTCCCCTATGTATCCTTTCAACAAAATCCAACAAAA
TGAATAACTTAGACTGATTATTTATTTAACTTATATGGAACACTACTATGAACCAGATGATTTACCAGAAACAATTCCTT
ACTTAAAAATTTTTACAGTAGTGCATAAAGTGCCTGATGATGACACTATTTTAAAATTCAAATGTGCCCTTAATTGGTTT
TTGAGAGAAAATGAAGCTAATGACAAACTTATTGGGGTCCAGTGTATGCATGGTTTAAACAGGACTTGCTATCTGATTTG
CAGGTATTTGGTTGATGTAGAAGGCATGAAGCCAGATGATGCAATTGAGATATTCAGTAGGTGCTGGAAATACTGTTTTG
AAAGACAAAACACACTGAAGACCTTCAGAATGGTACTGTCAGGAGGTATGGGATTTTTGGTGTATCCATTTCAAGTGGTT
TTGAAGAATCAACACAAATCCTGGAACAAATCAATGAGTCTGTTAACCAA

Alignment

ORF - retro_chof_932 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.99 %
• Parental protein coverage: 62.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  HIPERWKTCLPVAQRMPGTHFIAFKVPLKKSFEG-NLAPEECFLDV--FNKIGQNE-FGLITDLTYTERY
          H....WK..LPV.Q.MPG.HFIAF.V.LK..F.G.N.A.EECF.....FNKI.QNE...LI..LTY.E.Y
Retrocopy HANKSWKNYLPVGQWMPGNHFIAFNVTLKENFKG<NIALEECFSPMYPFNKIQQNE*LRLIIYLTYMEHY

Parental  NKPEDFPETIPYLK-FTVGHRVPDDDTILQFKYAVNG--RENKDNDKLIGVHCTHGLNRTGYLICRYLID
          ..P.D.PETIPYLK.FTV.H.VPDDDTIL.FK.A.N...REN..NDKLIGV.C.HGLNRT.YLICRYL.D
Retrocopy YEPDDLPETIPYLKIFTVVHKVPDDDTILKFKCALNWFLRENEANDKLIGVQCMHGLNRTCYLICRYLVD

Parental  VEGMRPDDAIELFNRCRGHCLERQN-YIEDLQNGPVRKYGGSGVSRSSGFEESTQILESVNKSVNR
          VEGM.PDDAIE.F.RC...C.ERQN...EDLQNG.VR.YG..GVS.SSGFEESTQILE..N.SVN.
Retrocopy VEGMKPDDAIEIFSRCWKYCFERQN<HTEDLQNGTVRRYGIFGVSISSGFEESTQILEQINESVNQ

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_932 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 5 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012041	2 retrocopies	retro_chof_2647, retro_chof_932 ,
Echinops telfairi	ENSETEG00000005304	1 retrocopy	retro_etel_487,
Macropus eugenii	ENSMEUG00000009370	1 retrocopy	retro_meug_1073,
Tupaia belangeri	ENSTBEG00000014600	1 retrocopy	retro_tbel_1984,
Tursiops truncatus	ENSTTRG00000015444	5 retrocopies	retro_ttru_1220, retro_ttru_1512, retro_ttru_1627, retro_ttru_1746, retro_ttru_1877,