RetrogeneDB ID: retro_chof_621

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_127407:4259..5385(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSF2
• Ensembl ID: ENSCHOG00000010951
• Aliases: None
• Description: heat shock transcription factor 2 [Source:HGNC Symbol;Acc:5225]

Sequence

>retro_chof_621
GTGGTGGAATTCCACACCAATGAATTTATCACCTGGAGCCAGAATGGCCAAAGTTTTCTGGTTTTGGATGAACAAAGATT
TGCAAAAGAAATTCTTCCCAAATACTTCAAGCACCATAACATGGCAAGCTTTGTGAGGCAACTGAATATGTACGGCTTCT
ATAAAGTAGTACATATCGACTCTGGGATTGTAAAGCACGAACGAGATGGTCCTGTTGAATTTCAGCATCCTTACTTCAAA
CAAGGCCAGTACGATTTGCTGGAAAACATTAAAAGGAGGGTTTCATCTTCAAAACCAGAAGAAAATAAAATTCGTCAGGA
AGGTTTAACAAAAATTATAAGTAGTGCTCAGAAGGTTCAAATAAAACAGGAGACAATTGAGTCCTGGCTTTCTGAATTGA
AAAGTGAGAATGAATCCCTTTGGAAGGAGGAGTCAGAATTATGAGCAAAACACACACAACAGCAACAAGTTATTCGAAAG
ATTGTCCAGTTTATTGTTACATTGGTTCAGAATAACCAATTTGTGAGATTAAAACGTAAAAGGCCTCTGCTTCTAAACAC
AAATGGAGCCCAAAAGAAGAATCTGTTTCAGCACGTAGTCAAAGAGCCAGCTGATAATCACCATCATAAAGTTCCACACA
ACAGGACTGAAGGCTTAAAACCAAGGGAGCGGATTTCTGATGGCATCATTATTTATGATGTTCCTGATGATAATCCAGAT
GAAGAAAATATTCCAGTTATTCCAAAAACTAATGAGGATGGTATATCTGATTCCTCCAGCTGTAGCCAGTACCCTGATAT
TGTCATTCTTGAAGACGACAATGAAGATGAGTTATGCACCTGTTATTCAGAGTGGGGATCAGAGTGAACCACCCAGCAAG
GCCCTAAGTTCAGGCAGTGATGGCAGCAGCCCACTCATGTCTAGTGCCATCCAGCTAAATGGCTCTTCCAGTCTGACCAC
AGATGATTCCATGACCATGATGGATTCCATTTTGAATGATAACATCAATCTTTTGGGAAAGGTTGAGCTGTTGGATTATC
TTGACAGTATTGATTTCTATTTAGAGGACTTCCAGGCCATGCTGTCAGGAAGACAGTTTAGCATAGACCCAGATCTGCTG
GTTGAT

Alignment

ORF - retro_chof_621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.22 %
• Parental protein coverage: 71.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VEETHINEFITWSQNGQSFLVLDEQRFAKEILPKYFKHNNMASFVRQLNMYGFRKVVHIDSGIVKQERDG
          V.E.H.NEFITWSQNGQSFLVLDEQRFAKEILPKYFKH.NMASFVRQLNMYGF.KVVHIDSGIVK.ERDG
Retrocopy VVEFHTNEFITWSQNGQSFLVLDEQRFAKEILPKYFKHHNMASFVRQLNMYGFYKVVHIDSGIVKHERDG

Parental  PVEFQHPYFKQGQDDLLENIKRKVSSSKPEENKIRQEDLTKIISSAQKVQIIQETIESRLSELKSENESL
          PVEFQHPYFKQGQ.DLLENIKR.VSSSKPEENKIRQE.LTKIISSAQKVQI.QETIES.LSELKSENESL
Retrocopy PVEFQHPYFKQGQYDLLENIKRRVSSSKPEENKIRQEGLTKIISSAQKVQIKQETIESWLSELKSENESL

Parental  WKEVSELRAKHAQQQQVIRKIVQFIVTLVQNNQLVSLKRKRPLLLNTNGSQKKNLFQHIVKEPADNHHHK
          WKE.SEL.AKH.QQQQVIRKIVQFIVTLVQNNQ.V.LKRKRPLLLNTNG.QKKNLFQH.VKEPADNHHHK
Retrocopy WKEESEL*AKHTQQQQVIRKIVQFIVTLVQNNQFVRLKRKRPLLLNTNGAQKKNLFQHVVKEPADNHHHK

Parental  VPHNRTEGLKPRERISDDIIIYDVTDDNPDEENIPVIPETNEDVISDPSSCSQYPDIVIVEDDNEDE-YA
          VPHNRTEGLKPRERISD.IIIYDV.DDNPDEENIPVIP.TNED.ISD.SSCSQYPDIVI.EDDNEDE.YA
Retrocopy VPHNRTEGLKPRERISDGIIIYDVPDDNPDEENIPVIPKTNEDGISDSSSCSQYPDIVILEDDNEDE>YA

Parental  PVIQSGDQSEPPSKSPSSGNDGSSPLMSSAVQLNGSSSLTTDDPVTMMDSILNDNINLLGKVELLDYLDS
          PVIQSGDQSEPPSK..SSG.DGSSPLMSSA.QLNGSSSLTTDD..TMMDSILNDNINLLGKVELLDYLDS
Retrocopy PVIQSGDQSEPPSKALSSGSDGSSPLMSSAIQLNGSSSLTTDDSMTMMDSILNDNINLLGKVELLDYLDS

Parental  IDCSLEDFQAMLSGRQFSIDPDLLVD
          ID..LEDFQAMLSGRQFSIDPDLLVD
Retrocopy IDFYLEDFQAMLSGRQFSIDPDLLVD

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_621 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010951	1 retrocopy	retro_chof_621 ,
Cavia porcellus	ENSCPOG00000007509	1 retrocopy	retro_cpor_1341,
Macaca mulatta	ENSMMUG00000007910	1 retrocopy	retro_mmul_867,
Tupaia belangeri	ENSTBEG00000013569	3 retrocopies	retro_tbel_1029, retro_tbel_19, retro_tbel_3,