RetrogeneDB ID: retro_chof_1185

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_22071:5540..6022(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: INSIG1
• Ensembl ID: ENSCHOG00000001982
• Aliases: None
• Description: insulin induced gene 1 [Source:HGNC Symbol;Acc:6083]

Sequence

>retro_chof_1185
AGAGGAATGTCAACCTTTCCCCAGAAGAAATTATTTTCCTCAGTCTGGGTTCCTCCCTATCATGGGACAGCAGCTTCTGT
CGTGGGCTTTCTCTGTATTGCCAGCCATCCTGGAGAATCGCACAAGTTTAAGAGAGAGAGGGCCAGCCTAATGTGCTGTA
TAGCAGTTTTTGTTGGCATTAATCATGCCAGTTAAGTGGATTTTGCCAATAACATTCAGCTGTCCTGGACTTTAGCAGCC
CTATCTTTGGGCCCTCGGTGAACATTTGATCATTCAAGACGTGGTCTTGGGCTTGGAATGACCATAGAATTTCTAGCTAT
GATCACTCAGTTTCTTGTTTGTAGTCAGTATACATCCCCCAAATTTCTCTGTATTTATTCTTGGCTCCATGCTTATTTTT
CTCAGGAGGTGTAATGGTAGGAAACACAGAATGACAACTGGCTTTGGTAATCCCAAAAAGCCACATAGCGATTGAGTCTT
CA

Alignment

ORF - retro_chof_1185 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.58 %
• Parental protein coverage: 52.6 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RNVTLFPEEVIATIFSSAWWVPPCCGTAAAVVGLLYPCIDSHLGEPHKFKREWASVMRCIAVFVGINHAS
          R....FP.......FSS.W.VPP..GTAA.VVG.L..CI.SH.GE.HKFKRE.AS.M.CIAVFVGINHAS
Retrocopy RGMSTFPQK---KLFSSVW-VPPYHGTAASVVGFL--CIASHPGESHKFKRERASLMCCIAVFVGINHAS

Parental  AKLDFANNVQLSLTLAALSLGLWWTFDRSRSGLGLGITIAFLATLITQFLVYNGVYQYTSPDFLYIRSWL
          ...DFANN.QLS.TLAALSLG...TFD.SR.GLGLG.TI.FLA..ITQFLV.....QYTSP.FL.I.SWL
Retrocopy *-VDFANNIQLSWTLAALSLGPR*TFDHSRRGLGLGMTIEFLA-MITQFLVCS---QYTSPKFLCIYSWL

Parental  -PCIFFSGGVTVGNIGRQLAMLIPLEESALKAA
          .PC.FFSGGV.VGN...QLA..IP....A....
Retrocopy <PCLFFSGGVMVGNTE*QLALVIPKSHIAIESS

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_1185 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001982	1 retrocopy	retro_chof_1185 ,
Cavia porcellus	ENSCPOG00000014739	1 retrocopy	retro_cpor_1173,
Loxodonta africana	ENSLAFG00000028120	1 retrocopy	retro_lafr_1207,
Myotis lucifugus	ENSMLUG00000028113	1 retrocopy	retro_mluc_2270,
Rattus norvegicus	ENSRNOG00000006859	1 retrocopy	retro_rnor_159,