RetrogeneDB ID: retro_chof_2073

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_47653:2..1314(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DAB2
• Ensembl ID: ENSCHOG00000002692
• Aliases: None
• Description: Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:2662]

Sequence

>retro_chof_2073
ATAAAATTAATTGATGAGAAACTGGGGCAATAGAACATGAACATCCCAGTGGAATAAAGTTTCTTTCACTGCTCGTGATG
TGACAGACAACTGGGCCCTTTGGTTATGCATGTGGAGGAGAAGGCCAGTATCAGTTTTTTGCCATAAAAACAGGGCAACA
AGCCAAGCCACTGGTTGTTGATTGTAAATATCTGTTTCAAGTTATCTACAATGTAAAGATAAAAGAAGAGAAAAAGATTA
AAGAAGCCAACAAAGCAGTAGAGGATGAAGCAAAAGCCTCCTGACTCTTGATGACCAAGCTAACAAATTGAAATTGGGTA
CTGACCACATGGATTTGTTTGGGGACTCGTCTACACCTCCTGACCTAAGTAGTCAAACAGAAAGCAAAGATATCCTGTTA
GTGGATCTAAACTCTGAAATCGACACCAATCAGAATTCTTTAAGAGAAAATCCATTAACAAATGGCACCACCTCCTGCTC
TCTTCCTCAACTGAAGTCTCAGGCATCCTTCTTGCTTGAAAATGCTTTTTCTACAAATCTCAACTTCTTTCCCAACCCCA
ATCCTGATCCTTTCCATAATGATCCTTTTGCACAACCAGACCAATCAATGTCTTCTTCATTCGATTCTCTCAAATCTCCA
GATCAGAAGAAAGAGAATCTGAGTAGCTTGTCTACTCCACTGAGTAATGGGCCCCTGCATGGTGATGTTGATTACTTTGG
TCAACAATTTGACCAAATCTCTAATTGGACTGGAAAACAGGAGGCTTGGGCAGGCTCTTCGCCCTTTTGAGTAGGCAAAC
ACAATCAGCAGTGAGAATTCAGAATGGGGTATCTGAAAGAGAAAAGAATGGCTTTCATATCAAATCTTCCCCAAACCCTT
TTGTGGGAAGCCCTCTCAAAGGACTGTCAGTATTGAATGGCATAAAGCAGGACTTAGAAAGCCCTGTCTAGCCCTCACCA
CGACTCCATAACCATTATCTCACCTCCACAAAATACCAAACCAGGAAGACGCAGGATTGCTAAATCTTCAGCCAGCAACT
TGCTTCCATCAGACCTCTTTGCTCCTTCTGTCTCAGAATCTCCAGGCCAGACATCACCTACAGGAAAACCTGCAGCCCAA
CACACCAATCCTCTGGATCTCTTCAAAACAGGTGTTTCAGTTCCAGTAAGGCTGGGTCTAGGTAGTGTACCAGTTACACT
CCGTCAGGCAGGACCATGGAACGCCCCACCATCTTTAGTCTTGTATCAGTCCCCTTCAATGGTCTCACAGGGTATTGTGA
GTGGTCAACCTTCAGGGAATTCCACCACATTG

Alignment

ORF - retro_chof_2073 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.16 %
• Parental protein coverage: 60.24 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  IKLIDEK-TGVIEHEH-PV-NKISFIARDVTDNRA-FGYVCGGEGQHQFFAIKTGQQAEPLVVDLKDLFQ
          IKLIDEK.TG.IEHEH.PV.NK.SF.ARDVTDN.A.FGY.CGGEGQ.QFFAIKTGQQA.PLVVD.K.LFQ
Retrocopy IKLIDEK<TGAIEHEH>PV>NKVSFTARDVTDNWA>FGYACGGEGQYQFFAIKTGQQAKPLVVDCKYLFQ

Parental  VIYNVKKKEEEKKKTEEANKAVENG-SENLLTLDDQTTKLKLGIDQMDLFGDMSTPPDLNSPTESKDILL
          VIYNVK.KEE..KK..EANKAVE...S..LLTLDDQ..KLKLG.D.MDLFGD.STPPDL.S.TESKDILL
Retrocopy VIYNVKIKEE--KKIKEANKAVEDE<SKSLLTLDDQANKLKLGTDHMDLFGDSSTPPDLSSQTESKDILL

Parental  VDLNSEIDTNQNSLRENPFLTNGTASCSLPRPKPQASFLPENAFSTNLNFFPTPNPDPFRDDPFTQPDQS
          VDLNSEIDTNQNSLRENP.LTNGT.SCSLP..K.QASFL.ENAFSTNLNFFP.PNPDPF..DPF.QPDQS
Retrocopy VDLNSEIDTNQNSLRENP-LTNGTTSCSLPQLKSQASFLLENAFSTNLNFFPNPNPDPFHNDPFAQPDQS

Parental  APSSFDSLKSPDQKKENLSSLSTPLSNGPLNGDVDYFGQQFDQISNRTGKQEAQAGSWPF-SSTQTQPAV
          ..SSFDSLKSPDQKKENLSSLSTPLSNGPL.GDVDYFGQQFDQISN.TGKQEA.AGS.PF..S.QTQ.AV
Retrocopy MSSSFDSLKSPDQKKENLSSLSTPLSNGPLHGDVDYFGQQFDQISNWTGKQEAWAGSSPF<LSRQTQSAV

Parental  RTQNGVSEGEQNGFHIKSSPNPFVGSPPKGLSVPNGVKQDLESSVQSSPH-DSIAIIPPPQNTKPGRGRR
          R.QNGVSE.E.NGFHIKSSPNPFVGSP.KGLSV.NG.KQDLES.V..SP......I.PP.QNTKPGR.RR
Retrocopy RIQNGVSEREKNGFHIKSSPNPFVGSPLKGLSVLNGIKQDLESPV*PSPR>SITIISPP-QNTKPGR-RR

Parental  TAKSSASDLLPSDLFAPPVSESPGQMSPTGQPATQQTNPLDLFKTSVSVPVGPLTGLGGVPVTPPQAGPW
          .AKSSAS.LLPSDLFAP.VSESPGQ.SPTG.PA.Q.TNPLDLFKT.VSVPV....GLG.VPVT..QAGPW
Retrocopy IAKSSASNLLPSDLFAPSVSESPGQTSPTGKPAAQHTNPLDLFKTGVSVPV--RLGLGSVPVTLRQAGPW

Parental  NPPPSLVFNQSPSMVPGAIVGGQPSGFGQSL
          N.PPSLV..QSPSMV...IV.GQPSG....L
Retrocopy NAPPSLVLYQSPSMVSQGIVSGQPSGNSTTL

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_2073 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	ENSCHOG00000002692	1 retrocopy	retro_chof_2073 ,