RetrogeneDB ID: retro_drer_21

Retrocopy location

• Organism: Zebrafish (Danio rerio)
• Coordinates: 12:308686..310087(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSDARG00000079888
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SLC2A11
• Ensembl ID: ENSDARG00000053961
• Aliases: None
• Description: solute carrier family 2 (facilitated glucose transporter), member 11 [Source:HGNC Symbol;Acc:14239]

Sequence

>retro_drer_21
AAGCGGGCGGGCTGGACGCGCACTCTGGCGTTCACCGTGTGTTCTGCAGCTATCGGAGGCACGTTTCAGTACGGCTACAA
CATCTCCATCATCAACGCGCCCACTGCGCATGTGCAGAGCTTCATCAACGCCAGCTGCGTGCGGCGCGGGGCGGCGCTGG
ACCCGGCGCGGGTGACGCTGGTGTGGACGCTGGCGGTGTCGGTGTTCCCGCTCGGGGGGCTGCTGGGCTCTCTGCTGGCG
GGGCCGATGGCGGTGCGGTGCGGCCGGAGAGGAGCGCTGCTGCTTAATAACATGTTCCTGCTGCTCGGTGCGCTGCTGGC
CCTGAGCTGCCGCGCCGCCGGCTCCTTCGAGATGCTGATCACTGCCCGTCTGCTGGTGGGCATCAACGCGGGCGTCAGCA
TGAACGTGCAGCCCATGTACTTTGGCGAGAGCGCACCCAAGCATCTGCGCGGCGCCGTGGCCTTCTCCTCCGCTGTGTTC
ACGGCGCTGGGCATCCTGATGGGGCAGCTGGCGGGCCTGACGGCGGTGCTGGGCAGCGAGGAGCGCTGGCATTACCTGCT
GTCCAGTAATGCGCTGCCCGGCCTGCTGCAGCTGCTGCTCCTGCCCTGCTGCCCCGAGAGCCCGCGCTTCCTGCTGATCG
ACCGCGGCGACAGCGACGCCTGCGCCCGCGCCCTCGCCCGCCTGCGCAGCGGCAGCACCGCCGCAGAGATGGAGGAGCTG
CTGCAGGAGCAGGCGCAGGCGGGTGACGCGCAGGCAAAAACTATCTGGCAGCTGTTCGCGGACCGCAGCCTCCGCCGCCA
GCTCTGCATCGTGATGACGGCCAGCAGCGTCATGATGCTCTGCGGCAACGACTCCATCTACTTCTACGCCTCCTACATCT
TCCAGCAGGCGGGCATCCCCTCCGCCAGCATCCAGTACGTGACGGTGGGCACGGGCGCCTGCGAGTTCCTCTCTGCTGTC
ACCTGTAATCTGCTGATCGAGCGGGTGGGCCGGCGCCCCCTGCTGGCCGGAGGGTACCTGCTGATGTCCTGCTGGGCCGT
GGTGTTCACGGTGGCGCTGTCTCTGCAGGACGCGGTGCCCGGGATGCCCTACCTCAGCATGACCTGTGTGTTCGCCTACA
TCCTGAGCTTCGGCATGGGCCCCGCGGGGGTCACCGGGATCCTGCCCGCAGAGCTCTTCCAGCAGACGGAGCGTCCCGCC
GCCTACATGATCGCCGGCTCCATGATGTGGCTCTGCCTGTTCCTGGTGGGCATGGCCTTCCCCTTTATAGTGGCGGGTCT
GGGCCAGTTCTGCTTCCTGCCCTTCTGCGGCGTCTGCGTGGCCGGCTGCGTGTTCATCAGCTGCAGCTTACCGGAGACCA
AAGGGCGGACGCTGGCGGAGATCACGGCGGAGTTCCAGAAG

Alignment

ORF - retro_drer_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.41 %
• Parental protein coverage: 93.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EKKGHSYTLVLMVTSAAIGGTLQYGYNLAIMNAPTIFIQNFVNETFQERWGIQLGVYEVTLIWTFIVSIF
          ...G...TL...V.SAAIGGT.QYGYN..I.NAPT...Q.F.N.....R.G..L....VTL.WT..VS.F
Retrocopy KRAGWTRTLAFTVCSAAIGGTFQYGYNISIINAPTAHVQSFINASCVRR-GAALDPARVTLVWTLAVSVF

Parental  SLGGLTGALIAGPMSVRLGRKKTLLLNNVFLLSSSLLALLSRTAKSFEMIIISRFLVGINAGISMNVQPM
          .LGGL.G.L.AGPM.VR.GR...LLLNN.FLL...LLAL..R.A.SFEM.I..R.LVGINAG.SMNVQPM
Retrocopy PLGGLLGSLLAGPMAVRCGRRGALLLNNMFLLLGALLALSCRAAGSFEMLITARLLVGINAGVSMNVQPM

Parental  YFGESAPKHLRGAVSLSSAVFTSFGLVLGQVVSLRELLGSEPYWQYLLASNAIPGFIQLLTLPWFPESPR
          YFGESAPKHLRGAV..SSAVFT..G...GQ...L...LGSE..W.YLL.SNA.PG..QLL.LP..PESPR
Retrocopy YFGESAPKHLRGAVAFSSAVFTALGILMGQLAGLTAVLGSEERWHYLLSSNALPGLLQLLLLPCCPESPR

Parental  YLLFDCKDKEACLSALKRLRGCEVRREELDELLQEQNEIKSDRAKQPWDLLTDRSVRWQLISVAVLSSAM
          .LL.D..D..AC..AL.RLR......E...ELLQEQ.......AK..W.L..DRS.R.QL..V...SS.M
Retrocopy FLLIDRGDSDACARALARLRSGSTAAE-MEELLQEQAQAGDAQAKTIWQLFADRSLRRQLCIVMTASSVM

Parental  QLCGNDSIYFYASYVFQEAGISAGQIQYVTIGTGMCEFTACILCNLLIERLGRKLMLMGGYVLMTGWAVV
          .LCGNDSIYFYASY.FQ.AGI....IQYVT.GTG.CEF.....CNLLIER.GR...L.GGY.LM..WAVV
Retrocopy MLCGNDSIYFYASYIFQQAGIPSASIQYVTVGTGACEFLSAVTCNLLIERVGRRPLLAGGYLLMSCWAVV

Parental  FTVALSLENIVTWMPYLSMTCIFTYILSFGMGPAGVSVILPTEIFNQTARPAACMTAGFLMWLNLFIIGM
          FTVALSL...V..MPYLSMTC.F.YILSFGMGPAGV..ILP.E.F.QT.RPAA.M.AG..MWL.LF..GM
Retrocopy FTVALSLQDAVPGMPYLSMTCVFAYILSFGMGPAGVTGILPAELFQQTERPAAYMIAGSMMWLCLFLVGM

Parental  IFPFLVSGLGQYCFVPFGTVCLVTATYIHMVLPETKGKTLPMITKEFYK
          .FPF.V.GLGQ.CF.PF..VC......I...LPETKG.TL..IT.EF.K
Retrocopy AFPFIVAGLGQFCFLPFCGVCVAGCVFISCSLPETKGRTLAEITAEFQK

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_21 retrocopy.

TSS

Danio rerio was not studied using FANTOM5 data.

Lab

retro_drer_21 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_drer_21 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
Danio rerio	ENSDARG00000053961	1 retrocopy	retro_drer_21 ,