RetrogeneDB ID: retro_shar_808

Retrocopy location

• Organism: Tasmanian devil (Sarcophilus harrisii)
• Coordinates: GL865133.1:29747..31348(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF512
• Ensembl ID: ENSSHAG00000014564
• Aliases: None
• Description: zinc finger protein 512 [Source:HGNC Symbol;Acc:29380]

Sequence

>retro_shar_808
CATTGTGCCACAGGGGATAGCACCTTCCAGAGCATTTCATCTGGCCACAACTCCCAAAGTGAAGCATTCCCTGACTCTTC
CTGAAAGTTGGTGAATGGTGGTTGTACATCTATCCCAAAGCTGACTTTTGGTTGGAAATGAGAGGGATCAAAGCAACTTC
TCATCCCTAAGGTGAAGTTACAGGTGGAGTATCAGGAAAAGAGAAGAGAAAGACTAGAGGGGAAGAAAAGGAAGATTATG
AAGAATTTCCTCAGAAGAAGCAGAAACTTTCTGGAAAGAAGCAGTGGTCTGGCTCAGCATGTCCCCAGAACCTAGAACTG
TTATATCCAGAAGTATCCACCAAGTTATCCAGCAGGCAGTGCAGAGGAGCAGTGGTATCTGGAAATCCTGGATAAAGGCA
GAATTTCTTGTCCAAGCTGTTGGGCAGTAGTCAGAAAGACAGTAAAGTGTCTAAAGAAGCACATGGGGAACTGCAGACAG
ATGTACATCTGTCACCACTATGGGAAGCAACGTTAGTCATTGGCAGGGATGAAATACCATGTCATGGCAGACCATAATAA
TTTGCCCATCCTGAAAGATGGGGGAGAGCTAGATGAGCCAAATGAATGAGAATATCTCCAAAAGGTCCTGAAAAGGATGA
GGAAGCTCAAGTGCACACAGGACAGTTGCTTTGGCAGCTTCACAAGCAACATGGACAACTTGTATCACATCCAAAAATGT
GGCAAAGAAGATGCAAAGCTGGAGCAGATGACACTGAAGTGGCACCATTGTGGAAAGACTTATGGCTTAAAGGCTGGACT
TATGTATCACCTATGATCAGAACATTGACCTATGCCCTTCTTTTCAGAGTCAGGCCAATCAGAGGGCTTAAGATATCTGT
GTTTAGAGACTAGTACTGGGGATCATGTACAGGGGCATTCAGCCAAAGTGGCTGTATATTACTTGCAGGAGCTAGCCAAT
GCCAAGTTGGCCTAAGAGTGGCCTAAGAAGAAGGTGCTTCAGGACCTGGTTCCTGATGACCGAAAGCTGAAATGTACTTG
TCCTGCACTACCTATCTTTAGCCAGGAAGTACTCTATAAATGGAAAACAGAAATCAAGATGTAACATCATGTCCATTGTC
CTAACCAGAGCTGTGTATCGGATTACAGTAATGTGTCTGGTCTGAAGGTTCACTTGGGCACTTGCTCATTGAGAAGCTTT
GTGGCTGGAAAATATAAGTGCCTCCTGTGTGAGAAGGAGTTCATGTCACACAGTGGTGTCAAATATCACATCAACTCTGT
TCATGCTGAGGATTGGTTCATGGAGAATATCACAACCACCAAAACTTTTGAGAAGCTGATGAAGATGCAGCATCAGCAGG
AGGAGTAAAGGCGATAGCAGCAGCACAAGAAGAGGATGTCTGTGAGGGATGGTAGAAAACAGTAGGTGTCTGAGGCTATG
CCGAACTAGAAAGAGTAAGGATGATGGGGAGGGAAGGGTCTAGCGGTTAAGCTTCTTGTGAGAATGCTGAAGGAGAAGAG
CTAAAGCCAGAGCAAGTACCCATGCCAGTGTGTTTCCAGACAGTGAAGCTCTCAAAAAACAGCTACAAATATGGAAGAAA
A

Alignment

ORF - retro_shar_808 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.23 %
• Parental protein coverage: 99.44 %
• Number of stop codons detected: 16
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HCATGDSSFQGTSSGHDSQSEAFSASSRKLVNGGRTSIRKPTY-WLEMRGIKATSHP--QVTGGVSG-KG
          HCATGDS.FQ..SSGH.SQSEAF..SS.KLVNGG.TSI.K.T..WLEMRGIKATSHP...VTGGVSG.K.
Retrocopy HCATGDSTFQSISSGHNSQSEAFPDSS*KLVNGGCTSIPKLTF<WLEMRGIKATSHP*GEVTGGVSG>KR

Parental  KRKTSGEEDEDYEEFPQKKQKLSVGKKQRPRAQHVSKTQSRYIRKDPPSYPAGSAEEQWYLEILDKGRVS
          .....G........F................AQHV..T...YI.K.PPSYPAGSAEEQWYLEILDKGR.S
Retrocopy RERLEGKKRKIMKNFLRRSRNFL--ERSSGLAQHVPRT*NCYIQKYPPSYPAGSAEEQWYLEILDKGRIS

Parental  CPTCRAVVRKTVEGLKKHMGNCRQEMYTCHHCGKQLRSLAGMKYHVMADHNNLPILKDGGELDEPNERER
          CP.C.AVVRKTV..LKKHMGNCRQ.MY.CHH.GKQ..SLAGMKYHVMADHNNLPILKDGGELDEPNE.E.
Retrocopy CPSCWAVVRKTVKCLKKHMGNCRQ-MYICHHYGKQR*SLAGMKYHVMADHNNLPILKDGGELDEPNE*EY

Parental  LRKVLKRMGKLKCTRESCSGSFTSIMGYLYHIRKCGKEAAELEKMTLKCHHCGKAYGSKAGLMYHLRSEH
          L.KVLKRM.KLKCT..SC.GSFTS.M..LYHI.KCGKE.A.LE.MTLK.HHCGK.YG.KAGLMYHL.SEH
Retrocopy LQKVLKRMRKLKCTQDSCFGSFTSNMDNLYHIQKCGKEDAKLEQMTLKWHHCGKTYGLKAGLMYHL*SEH

Parental  GPMPFFPESGRSESLRELSLETGTGGRVQRRSAKVAVYYLQELANAELAKEWPKKKVLQDLVPDDRKLKY
          .PMPFF.ESG.SE.LR.L.LET.TG..VQ..SAKVAVYYLQELANA.LA.EWPKKKVLQDLVPDDRKLK.
Retrocopy *PMPFFSESGQSEGLRYLCLETSTGDHVQGHSAKVAVYYLQELANAKLA*EWPKKKVLQDLVPDDRKLKC

Parental  TRPGLPTFSQEVLYKWKSEIKMYHRVHCPNQGCESVYSSVSGLKAHLGTCTLGDFVAGKYKCLLCEKEFV
          T.P.LP.FSQEVLYKWK.EIKM.H.VHCPNQ.C.S.YS.VSGLK.HLGTC.L..FVAGKYKCLLCEKEF.
Retrocopy TCPALPIFSQEVLYKWKTEIKM*HHVHCPNQSCVSDYSNVSGLKVHLGTCSLRSFVAGKYKCLLCEKEFM

Parental  SESGVKYHINSVHAEDWFMVNTTTTKSFEKLMKMQHQQEEQRRWQQQHKKRMSPRAGRKQRVSEAAPKKK
          S.SGVKYHINSVHAEDWFM.N.TTTK.FEKLMKMQHQQEE.RR..QQHKKRMS.R.GRKQ.VSEA.P..K
Retrocopy SHSGVKYHINSVHAEDWFMENITTTKTFEKLMKMQHQQEE*RR-*QQHKKRMSVRDGRKQ*VSEAMPN*K

Parental  ESGRRGGKGLV-GSASCENAEGEELEPEQVPVPVCFQTVKLSKTSHKRGRK
          E.G..GGKGL..G.ASCENAEGEEL.PEQVP.PVCFQTVKLSK.S.K.GRK
Retrocopy E*G*WGGKGLA<G*ASCENAEGEELKPEQVPMPVCFQTVKLSKNSYKYGRK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST

Sarcophilus harrisii was not studied using EST data.

TSS

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab

retro_shar_808 was not experimentally validated.

Homology

Retrocopy orthology:

Sarcophilus harrisii 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
Bos taurus	ENSBTAG00000003902	1 retrocopy	retro_btau_1331,
Echinops telfairi	ENSETEG00000015916	1 retrocopy	retro_etel_913,
Sorex araneus	ENSSARG00000002246	1 retrocopy	retro_sara_503,
Sarcophilus harrisii	ENSSHAG00000014564	1 retrocopy	retro_shar_808 ,
Tarsius syrichta	ENSTSYG00000006511	1 retrocopy	retro_tsyr_1021,