RetrogeneDB ID: retro_drer_10

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 1:55145763..55147389(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDARG00000087290
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: BX640461.1
• Ensembl ID: ENSDARG00000089344
• Aliases: None
• Description: None

Sequence

>retro_drer_10
GAAGATTCCGCCACATGTCGTCAAAGTGGGAAGCATACCTTTAAGGAAGGAAGCATCGAAAAGACAATGAGAATTCCCAC
CGAAGAGAAGCCATTCATCTGCCCCGAGTGTGGGAAGTGTTTTTCCGCCAAACAAAAGCTGGAGACCCATATTAGAATCC
ACACCGGAGAAAAGCCCTTCAGCTGCCCTCAATGCGGAAAAGGTTTCACGCAGCAGGGTCAGATTAAAACACACATGCGA
ATTCACACCGGAGAGAAACCCTTCACATGCCCTCAATGCGACAAGAGCGTTACGTCAAAACAAAGCCTCAAAAGTCACAT
GAGGATTCACACAGGAGAGAAACCGTTCACCTGTCCTGAGTGCGGCATGATCTTCTCCCAACTAGGATATCTTAAACGTC
ACGTAAGAACTCACACCGGCTTGAAACCTTTCAGCTGCACCCAATGTGGAAAACGCTACAAAGTGAAGCAAAGCCTTGAG
AGCCACATGAGAGTTCACACCGGAGAGAAGCCTTTCGCGTGTCCTCAGTGCGGAAAGGGTTTCACGGCAAAACAGTGTCT
TAAAAGTCACATGAGCGTTCACATCGAAGAGAAGCCTTTTAACTGCTCGCTGTGTGAAATGAGCTTCACCCACCAGCAAA
GTCTGAAGCGCCACATGTTGATTCACGTCGGAGAAAAGCCCTACGTTTGCCGTCAGTGCGGAAAGAGTTTCTCGGTGAAA
CAAAGCCTTGAGAGTCACATCAGGATCCACACCGGAGAGAAACCGTTTGCGTGCGCCGAGTGTGGAAAGGGTTTCGCCGT
CAAACAAAACCTTGAGAGTCACATGAGAGTTCACACCGGAGTGAAGCCTTTTTCCTGTCCTCAGTGTGGAAAGAGATTCA
CGGTGAAGCAAAGCCTCGAGAGTCACATGACTATTCACACCGGAGAACGGCCTTTTACGTGTTCAATGTGTGACAAGACT
TTCACGGTGAAACATAAGCTTGAATACCACATGAGAAATCACACCGGAGAGAAGCCTTACATCTGCCCTCAGTGTGGAAA
CAGTTACGCCTTGAGGAACCACCTCGAAAGACATGTACGAATTCACACCGGAGAAAAACCGTTCTCCTGTTCTAAGTGCG
CAAAGAGATTCACCATGAAGCAAAGCCTTAAAAGTCACATGAGAGTTCACAACAGAACTAAACCGTACATCTGCTCTCAA
TGCGGAAAGAGGTTCACGGTGAAGCAAAGCCTTGAGAGTCACATGAGCCTTCACACCGGAGAGAAACCTTTCACCTGCAC
TGAATGTGGAAAGAGTTATACGTTAAGACAAAGCTTAGAGACGCACATGAGGGTTCACACTGGTGACAAGTGTTTCAGCT
GCTCTGATTGTGGACGGAGTTTCACAGTGAAGCAAAACCTTCATGTCCACATGCGAGTTCACACCGGAGAGAGGCCTTAT
ACTTGCGCGCAGTGCGGAAAGAGATTCACGCAACACGGACAACTGAACCGTCACATGAGAATTCACACTGAGCAGAAGAC
GACTAGGGACCGTTCTGAAGAAACTCTAAATGATGAGACTGCAGACAATTCTTCAGACATACAACATCAGTCAGAGGAGA
AAGATGTAGTCACTGTGTTAATATAA

Alignment

ORF - retro_drer_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.78 %
• Parental protein coverage: 59.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TCQQCGKRFIRNASLKEHMIIHTGEKPHICQHCGKSCFRKAYLDIHIRVHTGEKPYTCQDCGKSFIRKAH
          TC.Q.GK......S....M.I.T.EKP.IC..CGK....K..L..HIR.HTGEKP..C..CGK.F.....
Retrocopy TCRQSGKHTFKEGSIEKTMRIPTEEKPFICPECGKCFSAKQKLETHIRIHTGEKPFSCPQCGKGFTQQGQ

Parental  LNTHAKVHSGEKPYSCTQCGKSFGRKNNLKSHMRIHTGEKPFTCTQCGKSFSSSSQLDQHMRIHTGEKPF
          ..TH...H.GEKP..C.QC.KS...K..LKSHMRIHTGEKPFTC..CG..FS....L..H.R.HTG.KPF
Retrocopy IKTHMRIHTGEKPFTCPQCDKSVTSKQSLKSHMRIHTGEKPFTCPECGMIFSQLGYLKRHVRTHTGLKPF

Parental  TCYQCGKSFSCLSHLNQHMRIHTGEKPFTCTQCGKSFSRSSSLNQHMRIHTGEKPFTCAQCGKSFSKSSS
          .C.QCGK.......L..HMR.HTGEKPF.C.QCGK.F.....L..HM..H..EKPF.C..C..SF....S
Retrocopy SCTQCGKRYKVKQSLESHMRVHTGEKPFACPQCGKGFTAKQCLKSHMSVHIEEKPFNCSLCEMSFTHQQS

Parental  LNQHMRIHTRDKPFTCTQCGRSFSHLSSLKHHIRIHTGEKPFTCAQCGKSFNSSSHLKIHMRIHTGEKPF
          L..HM.IH...KP..C.QCG.SFS...SL..HIRIHTGEKPF.CA.CGK.F.....L..HMR.HTG.KPF
Retrocopy LKRHMLIHVGEKPYVCRQCGKSFSVKQSLESHIRIHTGEKPFACAECGKGFAVKQNLESHMRVHTGVKPF

Parental  TCTQCGKSFSQSSHLKHHMRIHTGEKPFTCTQCGKSFSLSSNRNKHMRIHTGEKPFTCAQCGKSFSQSSH
          .C.QCGK.F.....L..HM.IHTGE.PFTC..C.K.F........HMR.HTGEKP..C.QCG.S.....H
Retrocopy SCPQCGKRFTVKQSLESHMTIHTGERPFTCSMCDKTFTVKHKLEYHMRNHTGEKPYICPQCGNSYALRNH

Parental  LNLHMMIHTGEKPFTCTQCGKSFSLLSSLNLHMMIHTGEKPFTCTQCGKSFSLSSNRNKHMRIHTGEKPF
          L..H..IHTGEKPF.C..C.K.F....SL..HM..H...KP..C.QCGK.F........HM..HTGEKPF
Retrocopy LERHVRIHTGEKPFSCSKCAKRFTMKQSLKSHMRVHNRTKPYICSQCGKRFTVKQSLESHMSLHTGEKPF

Parental  TCTQCGKSFSQSSHLNLHMMNHTGEKPFTCTQCGKSFSQSSNLNLHMRIHTGEKPFTCTQCGKSFSLLSS
          TCT.CGKS......L..HM..HTG.K.F.C..CG.SF....NL..HMR.HTGE.P.TC.QCGK.F.....
Retrocopy TCTECGKSYTLRQSLETHMRVHTGDKCFSCSDCGRSFTVKQNLHVHMRVHTGERPYTCAQCGKRFTQHGQ

Parental  LNIHMMIHTGEK
          LN.HM.IHT..K
Retrocopy LNRHMRIHTEQK

Legend:

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

Expression

RNA-Seq

Danio rerio was not studied using RNA-Seq expression data.

ChIP-Seq

Danio rerio was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_drer_10 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_10 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_10 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000022348	1 retrocopy	retro_acar_50,
Anolis carolinensis	ENSACAG00000024100	1 retrocopy	retro_acar_28,
Anolis carolinensis	ENSACAG00000024147	1 retrocopy	retro_acar_46,
Danio rerio	ENSDARG00000089344	1 retrocopy	retro_drer_10 ,
Xenopus tropicalis	ENSXETG00000024377	1 retrocopy	retro_xtro_31,