RetrogeneDB ID: retro_tnig_7

Retrocopy location

• Organism: Tetraodon (Tetraodon nigroviridis)
• Coordinates: 13:6736048..6737119(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTNIG00000006645
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: kcnj8
• Ensembl ID: ENSTNIG00000006480
• Aliases: None
• Description: potassium inwardly-rectifying channel, subfamily J, member 8 [Source:ZFIN;Acc:ZDB-GENE-060308-1]

Sequence

>retro_tnig_7
ATGCCCAAGTTCAAGGCCAAGCAGAGGAAGGCTCGCTTCGTGGCCAAGAACGGCACCTGCAATGTGGCGCACACCAACAT
CCGGGAGCAGGGCCGCTTCCTCCAGGACGTCTTCACCACTCTGGTGGATTTAAAATGGCTCCACACGCTCATCATCTTCA
CCATGTCGTTCCTGTGCAGCTGGCTCCTCTTCGGGATGATCTGGTGGCTCGTCGCCTTCGCGCACGGCGACTTGTACCAA
ACCGGGGACGCGTTCGTCCCGTGCGTCACGGACATTCACTCCTTCTCCTCCGCGTTCCTCTTCTCCATAGAGGTGCAGGT
GACCATCGGCTTCGGCGGCCGGATGATCACGGAGGAATGCGTGTCCGCCATCGTCATCCTGATCGTGCAGAACATCGTCG
GCCTGGTGATCAACGCCATCATGCTCGGCTGCATCTTCATGAAGACGGCGCAGGCCAACCGGCGCGCGGAGACGCTGATC
TTCAGCAAACACGCGGTCATCTCGGTGCGCAACAACAGGCTGTGCTTCATGATCCGCCTGGGCGACCTGAGGAAGAGCAT
GATCATCAGCGCCACCGTGCGGATGCAGGTGGTCCGGAGAACCACCACCGAGGAGGGCGAGCTGCTGCCCCTGGACCAGA
TCGACATCCACATGGACAACCCCGTGGGCACCAACGGGATCTTCCTGGTGTCCCCGCTGATCATCTGTCACGTGATCGAC
CAGGGCAGCCCCCTGTACAACCTGTCCGCCTCCGACCTGCTGCACGAGGACATCGAGGTGATCGTGGTGCTGGAGGGGGT
GGTGGAGACCACGGGCATCACCACGCAGGCCAGGACCTCCTACGTGGCGGAGGAGATCCTGTGGGGGCAGCGCTTCGTGC
CCACCGTGTCCGAGGAGGAGGGCGCGTACGCGGTGGACTACTCCAAGTTCGGCAACACCGTGAGGGTCCCCACGCCCCTC
TGCAGCGCCAGGAAACTGGACGAGGCCGGCGGCATCGCCCGGCTGAAGATGGACGAGGGCGTCACCTTGCGGCCGCTGGT
CAGGAAGCGGCGCGGCAACACGGTGCGCAGG

Alignment

ORF - retro_tnig_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.11 %
• Parental protein coverage: 79.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PVFRDRVNKARFIAKNGSCTLAHKNIREQGRFLQDVFTTLVDLKWRYTLVIFTTTFVSSWLLFAMCW-LV
          P.F.....KARF.AKNG.C..AH.NIREQGRFLQDVFTTLVDLKW..TL.IFT..F..SWLLF.M.W.LV
Retrocopy PKFKAKQRKARFVAKNGTCNVAHTNIREQGRFLQDVFTTLVDLKWLHTLIIFTMSFLCSWLLFGMIWWLV

Parental  AFAHGDLDPERQNRTNCVTNVTSFTSAFLFSIEVQVTIGFGGRMITEECLAAIAFLITQNILGLIINAVM
          AFAHGDL.........CVT...SF.SAFLFSIEVQVTIGFGGRMITEEC..AI..LI.QNI.GL.INA.M
Retrocopy AFAHGDLYQTGDAFVPCVTDIHSFSSAFLFSIEVQVTIGFGGRMITEECVSAIVILIVQNIVGLVINAIM

Parental  LGCIFMKTAQSNRRAETLIFSRHAVIAVRNNRLCFMVRIGDLRKSMIIGATVRLQVVRKTTTPEGEVIPI
          LGCIFMKTAQ.NRRAETLIFS.HAVI.VRNNRLCFM.R.GDLRKSMII.ATVR.QVVR.TTT.EGE..P.
Retrocopy LGCIFMKTAQANRRAETLIFSKHAVISVRNNRLCFMIRLGDLRKSMIISATVRMQVVRRTTTEEGELLPL

Parental  QQIDIQTESAITSNSLFLLAPLIICHVIDKTSPLYDLSAMELQCSDLEVIVILEGVVETTGITTQARTSY
          .QIDI........N..FL..PLIICHVID..SPLY.LSA..L...D.EVIV.LEGVVETTGITTQARTSY
Retrocopy DQIDIHMDNPVGTNGIFLVSPLIICHVIDQGSPLYNLSASDLLHEDIEVIVVLEGVVETTGITTQARTSY

Parental  VSEEILWGHRFVPIVTEEEGVYSVDYSKFGNTVKVNTPLCSARELDEKPSI
          V.EEILWG.RFVP.V.EEEG.Y.VDYSKFGNTV.V.TPLCSAR.LDE...I
Retrocopy VAEEILWGQRFVPTVSEEEGAYAVDYSKFGNTVRVPTPLCSARKLDEAGGI

Legend:

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

Expression

RNA-Seq

Tetraodon nigroviridis was not studied using RNA-Seq expression data.

ChIP-Seq

Tetraodon nigroviridis was not studied using ChIP-Seq data.

EST

Tetraodon nigroviridis was not studied using EST data.

TSS

Tetraodon nigroviridis was not studied using FANTOM5 data.

Lab

retro_tnig_7 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tnig_7 has 2 orthologous retrocopies within teleost group .

Species	RetrogeneDB ID
Gasterosteus aculeatus	retro_gacu_7
Takifugu rubripes	retro_trub_1

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Gasterosteus aculeatus	ENSGACG00000001115	1 retrocopy	retro_gacu_7,
Tetraodon nigroviridis	ENSTNIG00000006226	1 retrocopy	retro_tnig_21,
Tetraodon nigroviridis	ENSTNIG00000006480	1 retrocopy	retro_tnig_7 ,
Takifugu rubripes	ENSTRUG00000009953	1 retrocopy	retro_trub_1,
Xiphophorus maculatus	ENSXMAG00000017494	1 retrocopy	retro_xmac_24,