RetrogeneDB ID: retro_chof_2508

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_81129:5572..6460(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ADD1
• Ensembl ID: ENSCHOG00000004864
• Aliases: None
• Description: adducin 1 (alpha) [Source:HGNC Symbol;Acc:243]

Sequence

>retro_chof_2508
CTTGGTATGGTGACTCCTCTGAATGACTTTAGAGGATCTGATTCAATTGCATATGATAAAGGGGAAAATTATTGCAATAT
AAATTAGCAGCCTTTTACAGATTAGTGGATCTTTTTGGGTGGTTTTAGCTTATTTATAATTATATCACAAGCCAAGTGAA
CTCTGAGCAGGGGCACTTGCTCATTGTACACTTTGGACTTCATAGTGAAGTGACTGCATCCAGTTTGGTTAAAATCAACT
TGCAAGGAGATGTTGTAGATCATGGAAGTACAAGTCTAGGAGTAAATCAATCTGGCGTCATGTTGCATTCTGCAATCTGT
GCTGCCTGACCGGACATTAAATGTATTCTTCATACTCACAGGCCAGCAGGCACAGTGGTTTCTGCAGTAAAGTGTGGCCT
CTTGCCCATCTCACAGGAGGCATTTTCCCTGGGAGAACTGGCTTATCATGACTATCATAGGATTCCAATCGATGAAGAGG
ACAAAGTTTTGATTCAGAAAAATTTGGGACCTAAAAGCAAACGTCATATTCTCCAAAATCATGGACTCCTATCAGTTGGT
GAGACTGTTGAGGAGGCTTTCTATTATATCTATAACCTTGTGGTTGTGTGTGAGATCCAGTTTCACACTCTGGCCAGAGT
GGGAGGGCCAGACAACTTAGTCCTGCTGGATCCCAGCAAGTACAAAGCCAAGTCCCATGTCCTGAGTCTCCAGCAGGGGA
AGGGACCAGATGTCTCCCAAGATGCAGATTGGGGAGCAGGAGTTGAAATCCTCATGCAGATGCTGACAGTCTGGGTTACG
GAACTGGCCTCCCTTATCAATACCTGCTCTGGAGGAGAAATCTAAAAAGTACAGCGATGTGGAGGCTTCTGCTAGTGTTA
CCGGATAC

Alignment

ORF - retro_chof_2508 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.05 %
• Parental protein coverage: 50.08 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  LGMVTPVNDLRGSDSIAYDKGE-KLLRCKLAAFYRLADLFGWSQLIYNHITTRVNSEQEHFLIVPFGLLY
          LGMVTP.ND.RGSDSIAYDKGE.KLL..KLAAFYRL.DLFGW..LIYN.IT..VNSEQ.H.LIV.FGL..
Retrocopy LGMVTPLNDFRGSDSIAYDKGE<KLLQYKLAAFYRLVDLFGWF*LIYNYITSQVNSEQGHLLIVHFGL-H

Parental  SEVTASSLVKINLQGDVVDRGSTNLGVNQAGFTLHSAIYAARPDVRCIVHIHTPAGAAVSAMKCGLLPIS
          SEVTASSLVKINLQGDVVD.GST.LGVNQ.G..LHSAI.AA.PD..CI.H.H.PAG..VSA.KCGLLPIS
Retrocopy SEVTASSLVKINLQGDVVDHGSTSLGVNQSGVMLHSAICAA*PDIKCILHTHRPAGTVVSAVKCGLLPIS

Parental  PEALSLGELAYHDYHGILVDEEEKVLIQKNLGPKSKVLILRNHGLVSVGETVEEAFYYIHNLVVACEIQV
          .EA.SLGELAYHDYH.I..DEE.KVLIQKNLGPKSK..IL.NHGL.SVGETVEEAFYYI.NLVV.CEIQ.
Retrocopy QEAFSLGELAYHDYHRIPIDEEDKVLIQKNLGPKSKRHILQNHGLLSVGETVEEAFYYIYNLVVVCEIQF

Parental  RTLASAGGPDNLVLLDPSKYKAKARV-PESPAGEGT-GSPPKWQIGEQEF-EALMRML-DNLGYRTGYPY
          .TLA..GGPDNLVLLDPSKYKAK..V.PESPAGEGT....PK.QIGEQE..E.LM.ML.D.LGY.TG.PY
Retrocopy HTLARVGGPDNLVLLDPSKYKAKSHV<PESPAGEGT<QMSPKMQIGEQEL<EILMQML<DSLGYGTGLPY

Parental  RY-PALREK-EKYSDVEVPASVTGY
          .Y.PAL.EK..KYSDVE..ASVTGY
Retrocopy QY<PALEEKSKKYSDVEASASVTGY

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_2508 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004864	1 retrocopy	retro_chof_2508 ,