RetrogeneDB ID: retro_tgut_17

Retrocopy location

• Organism: Zebrafinch (Taeniopygia guttata)
• Coordinates: 1A:59714115..59715084(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTGUG00000011719
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTGUG00000001947
• Aliases: None
• Description: zinc finger protein 183-like (RNF113A2), mRNA [Source:RefSeq mRNA;Acc:NM_001245166]

Sequence

>retro_tgut_17
ATGACGGAGGAGAGCAGTGTCTGCAGCTTTGTGTTCAAGAAGCGGGTGCGAGCTGCAGGCAGCAGCCGGCGGAAATGGCC
TGGCAGTGAGCAGGAGCAGGACAGCAGTGGGGAAGAGGGCAGCACCGTGGTGCGCAAGAAGTTGCCCAGGGACACCCCCA
ACTCCATGATCCAGAAGACTAGGTGCTGCATGAGGGAGAGGCTGGAGTATGCGCCAAGCAGCAGCGAGGATGAGGATCCT
GCCAAGGAAATCGGGGTCACCTACAAATCAACCAGGTCGGCAAAACCTGTTGGCCCAGAAGACATGGGGGCCACAGCAGT
GTATGAACTGGACACGGAGAAGGATGCCCAGGCTATCTTTGAGCGCAGCCAAAAAATCCAGGAGAAGCTGAGAGGAAAGG
AAGATGATAAAATTTATCATGGCATTAATAACTACCAGAAGTATGTGAAGCCCAAGGACACATCGATGGGAAATGCCTCC
TCAGGAATGGTCAGAAAAGGCCCCATGCGTGCTCCGGAGCACTTGCAGGCCACAGTGCGCTGGGACTACCAGCCTGACAT
CTGCAAGGACTACAAAGAGACTGGATTCTGTGGCTTTGGGGATAGCTGCAAATTCCTGCACGACCGCTCGGACTACAAGC
ACGGCTGGCAGATTGAACGGGAGCTGGACGAGGGCCGCTACGGCGTCAATGACAGTGGAAACTATGAGGTGAGCAGTGAT
GAGGAGGACATGCCTTTCAAATGCTTCATCTGCAGAGGTTCCTTCCAGAACCCTGTGGTCACCAAGTGTCGGCACTACTT
CTGTGAGAGCTGTGCCCTACAGCACTACCGCAAATCCCAGCGCTGTTATGTCTGTGAGAAGCAAATCAACGGGGTCTTCA
ACCCTGCAAAAGACCTCATGGCAAAATTGGAAAAACACAAAGGGGAGGAAGAAGAGGGGCAACAGTCATGCCATGAAGAG
GATCCAAAG

Alignment

ORF - retro_tgut_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.85 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEESGVCSFVFKKRVRAAGSGRRKRPASDQERESSGEEGSTVVRKERRRDTPNPMIQKTRRCTRERPEY
          M.EES.VCSFVFKKRVRAAGS.RRK.P.S.QE..SSGEEGSTVVRK...RDTPN.MIQKTR.C.RER.EY
Retrocopy MTEESSVCSFVFKKRVRAAGSSRRKWPGSEQEQDSSGEEGSTVVRKKLPRDTPNSMIQKTRCCMRERLEY

Parental  APSSSEDEDPAKEIGVTYKSTRSAKPVGPEDMGATAVYELDTEKEKDAQAIFERCQKIQEELRGKEDDKI
          APSSSEDEDPAKEIGVTYKSTRSAKPVGPEDMGATAVYELDTEK..DAQAIFER.QKIQE.LRGKEDDKI
Retrocopy APSSSEDEDPAKEIGVTYKSTRSAKPVGPEDMGATAVYELDTEK--DAQAIFERSQKIQEKLRGKEDDKI

Parental  YRGINNYQKYVKPKDTSMGNASSGMVRKGPIRAPEHLRATVRWDYQPDICKDYKETGFCGFGDSCKFLHD
          Y.GINNYQKYVKPKDTSMGNASSGMVRKGP.RAPEHL.ATVRWDYQPDICKDYKETGFCGFGDSCKFLHD
Retrocopy YHGINNYQKYVKPKDTSMGNASSGMVRKGPMRAPEHLQATVRWDYQPDICKDYKETGFCGFGDSCKFLHD

Parental  RSDYKHGWQIERELDEGRYGVNDDENYEVSSDEEDMPFKCFICRGSFKNPVVTKCRHYFCESCALQHYRK
          RSDYKHGWQIERELDEGRYGVND..NYEVSSDEEDMPFKCFICRGSF.NPVVTKCRHYFCESCALQHYRK
Retrocopy RSDYKHGWQIERELDEGRYGVNDSGNYEVSSDEEDMPFKCFICRGSFQNPVVTKCRHYFCESCALQHYRK

Parental  SQRCYVCDKQTNGVFNPAKELMAKLEKHKGEEEEEQRSDQEEDPQ
          SQRCYVC.KQ.NGVFNPAK.LMAKLEKHKGEEEE.Q.S..EEDP.
Retrocopy SQRCYVCEKQINGVFNPAKDLMAKLEKHKGEEEEGQQSCHEEDPK

Legend:

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

Expression

RNA-Seq

Taeniopygia guttata was not studied using RNA-Seq expression data.

ChIP-Seq

Taeniopygia guttata was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tgut_17 retrocopy.

TSS

Taeniopygia guttata was not studied using FANTOM5 data.

Lab

retro_tgut_17 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tgut_17 has 0 orthologous retrocopies within neognath group .

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000012485	1 retrocopy	retro_acar_207,
Taeniopygia guttata	ENSTGUG00000001947	1 retrocopy	retro_tgut_17 ,