RetrogeneDB ID: retro_gacu_14

Retrocopy location

• Organism: Stickleback (Gasterosteus aculeatus)
• Coordinates: groupXV:8707501..8708590(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGACG00000010254
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGACG00000019833
• Aliases: None
• Description: None

Sequence

>retro_gacu_14
GTTCCAGGACAGAGTATGCCATCTGCACCTTTTCACAGAATCCTACGACCCCTTCTGCTCGGCACTTTTGTACTGGGATG
CTTTGTGACTCTGTTTTTGATGTATTTTAAACCATCCACCAGCTGGTTGTCAGGTCCTGTAGAGTCAACAGCATCCACCA
ACGGGGTGAAGAACCTCTTCTCCACCAAGAGTGATAAAAACGTGACCACGGTGCTGATCTGGCTCTGGCCGTTCGGACAA
ACCTATGACCTGGGCGTGTGCAGCTCTCTCTTCAACATCGAAGGCTGCTTCATAACAGCGGACCGCAACTTCTACAACAA
GTCGGATGGAGTCGTCATCCACCACCGGGACATCTGCACGGACTTGTCCAACCTGCCGCCGCTCCAGCGACCATCCTTCC
AGAAGTGGGTATGGATGAACCTGGAGTCCCCGTCACACTCCTCCCAGCTGCCTGGGATTGAAAATATGTTCAATCTCACT
CTCAATTACCGTCAGGATGCTGACATTGAAGTGCCTTATGGGTCAATTGTAGCAGCGGAGGGCGAGGAGGACTTTGTCGC
ACCCAGCAAAAACAAGCTCATCTGCTGGATTGTGAGCAACTGGAACCAGGACCACGTGCGGGTGAAGTACTACAATGAGC
TGTACAAACACATTGAGGTGCATGCGTATGGACAAGCCTTCGGGGAGTACATCTCGGACCAAGACTACTTCCCCACCATC
GCCAGCTGCAAGTTCTACCTGGCTTTTGAGAACTCCATTCACAAGGACTACATCACTGAAAAACTGTACAACCCGCTGTC
CGTGGGCTCAGTGCCAGTGGTTCTCGGGCCGCCCAGGCAAAACTACGAGAACTTTATCCAGGGAGACGCCTTCATCCACG
TGGACGACTTCACTTCGCCCAAGGAGCTGGCCGAATACCTGCTGCTCTTGGACAAGAACGAGGAAATGTACCTCAGGTAC
TTTGAGTGGAGGCGGCACTTTAAAGTAAAGAAGGCCTATTTCTGGGCAGAGCACACATGCCTGGCTTGTGATTATCTGCG
TAGACACAAGGAATACAAGTCCTTCAATAACCTTGACAAGTGGTACTGG

Alignment

ORF - retro_gacu_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.14 %
• Parental protein coverage: 96.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RPILFGSLLAFCFICLFISYKADVAYPDFGRVERAQSHDSIPSNSTELLNKSHSVVLVWMWPFGFKFELN
          RP.L.G.....CF..LF..Y.........G.VE...S.............K....VL.W.WPFG....L.
Retrocopy RPLLLGTFVLGCFVTLFLMYFKPSTSWLSGPVESTASTNGVKNLFSTKSDKNVTTVLIWLWPFGQTYDLG

Parental  C--DIFNFTRCHLTDDKELYHKAHGVVFHHRDIHGNLENMPKGPRPVFQKWVWSNMESPTNSGKITGLNE
          .....FN...C..T.D...Y.K..GVV.HHRDI...L.N.P...RP.FQKWVW.N.ESP..S....G...
Retrocopy VCSSLFNIEGCFITADRNFYNKSDGVVIHHRDICTDLSNLPPLQRPSFQKWVWMNLESPSHSSQLPGIEN

Parental  LFNLTCNYRRDSSIPVPYGYLYPVTSAEESFKLPAKDKLVCWIVSNWSPNMKRVQYYNELKKHVTIHAYG
          .FNLT.NYR.D..I.VPYG........EE.F..P.K.KL.CWIVSNW.....RV.YYNEL.KH...HAYG
Retrocopy MFNLTLNYRQDADIEVPYGSIV-AAEGEEDFVAPSKNKLICWIVSNWNQDHVRVKYYNELYKHIEVHAYG

Parental  RAFEKPIGNEDFVKIISACKFYLSFENSFHRDYITEKFFNPLTWGSVPVVMGPPRHTYEGHAPAESFIHV
          .AF...I...D....I..CKFYL.FENS.H.DYITEK..NPL..GSVPVV.GPPR..YE.......FIHV
Retrocopy QAFGEYISDQDYFPTIASCKFYLAFENSIHKDYITEKLYNPLSVGSVPVVLGPPRQNYENFIQGDAFIHV

Parental  DDFPSPKELAERLLYLDQNHTEYMRFFNWRSTFKVKGALFGREIACKTCRYLQNHKEYQAFNDLNTWYW
          DDF.SPKELAE.LL.LD.N...Y.R.F.WR..FKVK.A.F..E..C..C.YL..HKEY..FN.L..WYW
Retrocopy DDFTSPKELAEYLLLLDKNEEMYLRYFEWRRHFKVKKAYFWAEHTCLACDYLRRHKEYKSFNNLDKWYW

Legend:

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

Expression

RNA-Seq

Gasterosteus aculeatus was not studied using RNA-Seq expression data.

ChIP-Seq

Gasterosteus aculeatus was not studied using ChIP-Seq data.

EST

Gasterosteus aculeatus was not studied using EST data.

TSS

Gasterosteus aculeatus was not studied using FANTOM5 data.

Lab

retro_gacu_14 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_gacu_14 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Gasterosteus aculeatus	ENSGACG00000019833	1 retrocopy	retro_gacu_14 ,