RetrogeneDB ID: retro_chof_1729

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_37026:9229..9652(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM11
• Ensembl ID: ENSCHOG00000007826
• Aliases: None
• Description: RNA binding motif protein 11 [Source:HGNC Symbol;Acc:9897]

Sequence

>retro_chof_1729
GGAATTTGTGTATATGGAAGATCAATTAATGTAGAGTATTGACTTGGGAGTTCTTGTTTTTCTAAACCAACTAACCAAAG
TTTTGAGAACTGTGTTAAGACAAACTCACACAGCTACAGGAATGAAGAAGTTGTGGGCAGATCTTCATTTCCTATGCAGT
TTTTGCCAATTAATAATCCTGCTTTACCTCAAGAATACTGTTTTATTCAGAAAATGTAGTAGCTTGCCTATAACCCAATG
TGGCTGCTTCCTTACTATGAGATGACAGCACCACTTCCTAATAGCCCATCTCCATCTTCCTCACTAAATCGTGTTCCAGA
ACTAGAAGTTGGACCCAGCTCTTCTGAATGGACTCACCAGCAACTGAGTGACTCTGACATTTATCAGATGAATAAGCAAA
AGAGACAAAAGCAAACCAGTGAT

Alignment

ORF - retro_chof_1729 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.72 %
• Parental protein coverage: 66.51 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GIRLYGRPINVQYRFGSSYSSEPTNQSFENCVKTNLHSYRNEEVVVRSSFPMQSLPVNNVTLPQDYFFFQ
          GI..YGR.INV.Y..GSS..S.PTNQSFENCVKTN.HSYRNEEVV.RSSFPMQ.LP.NN..LPQ.Y.F.Q
Retrocopy GICVYGRSINVEY*LGSSCFSKPTNQSFENCVKTNSHSYRNEEVVGRSSFPMQFLPINNPALPQEYCFIQ

Parental  KMQWHAYNPMWQLPYYEMTAPLPNSPSLSSSLNHVPELEAGPSSYEWTHQPPSDSDLYQINKQKRQKQTS
          KM...AYNPMW.LPYYEMTAPLPNSPS.SSSLN.VPELE.GPSS.EWTHQ..SDSD.YQ.NKQKRQKQTS
Retrocopy KM**LAYNPMWLLPYYEMTAPLPNSPSPSSSLNRVPELEVGPSSSEWTHQQLSDSDIYQMNKQKRQKQTS

Parental  D
          D
Retrocopy D

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_1729 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	ENSCHOG00000007826	2 retrocopies	retro_chof_1729 , retro_chof_922,
Choloepus hoffmanni	ENSCHOG00000012747	1 retrocopy	retro_chof_570,