RetrogeneDB ID: retro_drer_19

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 10:17312609..17313338(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: gnai1
• Ensembl ID: ENSDARG00000021647
• Aliases: gnai1, zgc:63957
• Description: guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1310]

Sequence

>retro_drer_19
ATGGGGTGCCGGCAGAGTACAGAGGAGAAGGAGGCCGCCAGACGTTCAAGGCGCATCGATAGACACCTACGATCAGAAAG
CCAGCGACAGCGTCGTGAAATTAAACTTCTGCTTCTAGGCACCAGCAACTCAGGCAAGAGCACCATCGTGAAGCAGATGA
AGATCATCCATAGTGGAGGCTTCAACCTAGAGGCCTGCAAGGAATACAAGCCTCTCATCCTTTACAACGCCATTGACTCA
CTCACCCGCATCATCCGTGCCCTCGCCACCTTGAAGATAGACTTCCATAACCCTGATCGTGCTTATGATGCAGTGCAACT
CTTTGCCCTCACCGGGCCGGCTGAGAGCAAGGGCGAGATCACGCCAGAGCTCCTGGGGGTGATGAAGCGATTGTGGGCTG
ATCCAGGCGTCCAGGAGTGTTTCTGCCGCTCTAATGAGTACCACCTAGAGGACAATACAGCATATTATCTAAATGACCTG
GACCGCATTTCCGCCCCAGAGTACATCCCAACTGTCGAGGACATTCTGCGCTCACGTGACATGACCACCGGCATTGTTGA
GAACAAGTTCACCTTCAAAGAGCTCACCTTCAAAATGGTGGATGTGGGTGGCCAGCGTTCAGAAAGGAAGAAGTGGATCC
ACTGTTTTGAGGGTGTGACTGCCATTATATTCTGTGTGGAGCTGAGCGGCTATGACCTCAAACTTTATGAAGACAACCAG
ACGGTAAGG

Alignment

ORF - retro_drer_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.2 %
• Parental protein coverage: 68.36 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGCTLSTEDKAAVERSKMIDRNLRDDGEKAAREVKLLLLGAGESGKSTIVKQMKIIHEAGYSEEECKQYK
          MGC..STE.K.A..RS..IDR.LR.......RE.KLLLLG...SGKSTIVKQMKIIH..G...E.CK.YK
Retrocopy MGCRQSTEEKEAARRSRRIDRHLRSESQRQRREIKLLLLGTSNSGKSTIVKQMKIIHSGGFNLEACKEYK

Parental  AVVYSNTIQSIIAIIRAMGRLKIDFGDAARADDARQLFVLAGSAE-EGFMTAELAGVIKRLWKDGGVQAC
          .....N.I.S...IIRA...LKIDF....RA.DA.QLF.L.G.AE..G..T.EL.GV.KRLW.D.GVQ.C
Retrocopy PLILYNAIDSLTRIIRALATLKIDFHNPDRAYDAVQLFALTGPAESKGEITPELLGVMKRLWADPGVQEC

Parental  FSRSREYQLNDSAAYYLNDLDRISQATYIPTQQDVLRTRVKTTGIVETHFTFKDLHFKMFDVGGQRSERK
          F.RS.EY.L.D..AYYLNDLDRIS...YIPT..D.LR.R..TTGIVE..FTFK.L.FKM.DVGGQRSERK
Retrocopy FCRSNEYHLEDNTAYYLNDLDRISAPEYIPTVEDILRSRDMTTGIVENKFTFKELTFKMVDVGGQRSERK

Parental  KWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNR
          KWIHCFEGVTAIIFCV.LS.YDL.L.ED....R
Retrocopy KWIHCFEGVTAIIFCVELSGYDLKLYEDNQTVR

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_19 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_19 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_19 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ciona intestinalis	ENSCING00000005305	1 retrocopy	retro_cint_14,
Ciona savignyi	ENSCSAVG00000001800	1 retrocopy	retro_csav_19,
Danio rerio	ENSDARG00000021647	1 retrocopy	retro_drer_19 ,
Microcebus murinus	ENSMICG00000011752	1 retrocopy	retro_mmur_1103,