RetrogeneDB ID: retro_chof_440

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_109001:414..1033(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM184B
• Ensembl ID: ENSCHOG00000001691
• Aliases: None
• Description: transmembrane protein 184B [Source:HGNC Symbol;Acc:1310]

Sequence

>retro_chof_440
CATGCCTTGGACTCCTGGCTCAGCCTCCTCTTCTTCACTAACGACAGGTACTATGTGTAGTATGGCACTGTGCACAATTG
CTACAAGGCCTTGGTCATCTATAATTCTCTGACCCTGTGCTATGAATGCCTTGGAGGAGAAAGTTCCAGCGTGTCTGAGA
TCAGAGAGAATCATGTTGAATCCAGCTGTATGCATGGCACATGCCACTTCTAGGGCAAGATTTATTCCATCAGATTCCTG
CAGTTCTGCAAATAGGCCACCCTGCAGTTCTGTGTAATGAAACCACTGATGGCTGTCAGCGCTCTGGTCCCCCAGGCCTT
GGGCAAGCACCAGGACGGTGACATCGTCGTCACCAGCGGCCTCCTCTGTGTGACCATCATTTACTACATCTCCATCAGCC
TGGACCTCTATGCTGTCTTCCTCTTCTACTTCACCACCCGGGAAGTAGCTCAGCCCCTACAGCCCTGTCCTCGAGTTCTT
CATGGTTAAGTCTGTCATCTTCCACTCCTTCTAGCAAGACATGCTCCTGGCCATTGTGGAGAAGTGTGGGGCCATCCCCA
AGATCCACTCGGCCCACGTGCTGGTGGGAGAGGGCACCGTGGCCGCCGACTACGAGGAC

Alignment

ORF - retro_chof_440 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.98 %
• Parental protein coverage: 77.99 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YAFDSWLSLLFFTNDQYYVYFGTVRDCYEALVIYNFLSLCYEYLGGESSIMSEIRGKPIESSCMYGTCCL
          .A.DSWLSLLFFTND.YYV..GTV..CY.ALVIYN.L.LCYE.LGGESS..SEIR....ESSCM.GTC..
Retrocopy HALDSWLSLLFFTNDRYYV*YGTVHNCYKALVIYNSLTLCYECLGGESSSVSEIRENHVESSCMHGTCHF

Parental  -WKTYSIGFLRFCKQVTQ--CV-KPLMAVSTVILQAFGKYRDGDFDVTSGYLYVTIIYNISVSLALYALF
          ..K.YSI.FL.FCK..T...CV.KPLMAVS....QA.GK..DGD..VTSG.L.VTIIY.IS.SL.LYA.F
Retrocopy *GKIYSIRFLQFCK*ATLQFCVMKPLMAVSALVPQALGKHQDGDIVVTSGLLCVTIIYYISISLDLYAVF

Parental  LFYFATREL-LSPYSPVLKFFMVKSVIFLSFWQGMLLAILEKCGAIPKIHSARVSVGEGTVAAGYQD
          LFYF.TRE..LSPYSPVL.FFMVKSVIF.SF.Q.MLLAI.EKCGAIPKIHSA.V.VGEGTVAA.Y.D
Retrocopy LFYFTTREV>LSPYSPVLEFFMVKSVIFHSF*QDMLLAIVEKCGAIPKIHSAHVLVGEGTVAADYED

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_440 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	ENSCHOG00000001691	1 retrocopy	retro_chof_440 ,