RetrogeneDB ID: retro_tnig_21

Retrocopy location

• Organism: Tetraodon (Tetraodon nigroviridis)
• Coordinates: 7:10707890..10708907(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTNIG00000000371
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: KCNJ10 (1 of 2)
• Ensembl ID: ENSTNIG00000006226
• Aliases: None
• Description: potassium inwardly-rectifying channel, subfamily J, member 10 [Source:HGNC Symbol;Acc:6256]

Sequence

>retro_tnig_21
ATGGTCGGGTCCACGGCTGAGCGGAGGATCGTGTCCAAAGATGGCCACAACAACGTGCGCATCGACAACGTGGAGGGCAT
GGTCAAGCTGTACCTGCACGACATCTGGACCACCGTGGTGGACATGAAGTGGCGCTACAAGCTCACCCTTTTCGCCTCCA
CCTTCGTCTTGACCTGGTTCATCTTTGGGGTCATCTTCTACTTCATCGGCATGGGCAACGGCGACTACCAGGCGGGTTCC
AACTCCACCCACACGCCCTGCGTGACCAACGTGGAGACGCTCACCGGGGCCTTCCTCTTCTCCCTGGAGTCCCAGACCAC
CATCGGCTACGGCTTCCGCTACATCTCGGAGGAGTGTCCCCTGGCCATCTTCACCCTGGTGGCGCAGCTGGTCATCACGG
GCCTGGCGGAGATCTTCGTCACCGGCGCCTTCCTCGCCAAACTGGCCCGGCCCAAGAAGCGGTCGGAGACCATCAAGTTC
AGCCAGGTGGCGGTGATCTGCCGGCGCCAGGGGAAGCTGTGTCTGATGGTGAGGGTGGCCAACATGAGGAAGAGTCTCCT
CATCCAGTGCCAGCTGACGGGGAAGCTGCTCCACCCCAGCGTCACGCAGGAGGGCGAGAAGACCCTGGTCCACCAGAGCC
CCGTGGACTTCTACATGGACTCCAGCGGCGACTGCCCCTTCCTCATCCTGCCGCTCACCTTCTACCACGTTCTGGACGAG
CACAGCCCGCTGGCAGGCCTGAACGCCAGGAACCTCCGCCGGCACGACTTTGAGCTGCTGGTCACCCTCAACGCCACCAT
GGAGTCCACAGCGGCCACCTGCCAGAGCCGCACCTCCTACATCCCCCAGGAGATCCTCTTCGGCTACGAGTTCAGGCCGG
TGCTCTTCAGCACCACGGGGGGCCGCTACGTGGCCGATTTCAACTTTTTCGACAAGGTGCAGCTGAGCAGCGACTCCGGT
TTCCACAGCAACGACAAGGAGAAGCTCCAGCTGGAGGAGGACTACAAGAAAGAGTAG

Alignment

ORF - retro_tnig_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.91 %
• Parental protein coverage: 74.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RRILSKDGRSNVRIEHVSGRSALYMRDLWTTFVDMQWRYKSFIFTATFAGTWFLFGVLWYLVALAHGDLL
          RRI.SKDG..NVRI..V.G...LY..D.WTT.VDM.WRYK...F..TF..TWF.FGV..Y......GD..
Retrocopy RRIVSKDGHNNVRIDNVEGMVKLYLHDIWTTVVDMKWRYKLTLFASTFVLTWFIFGVIFYFIGMGNGDY-

Parental  DFNPPSNHTPCVMQMQTLTGAFLFSLESQTTIGYGFRCITEECPAAIILLIIQLVITMLMEIFITGTFLA
          .....S.HTPCV....TLTGAFLFSLESQTTIGYGFR.I.EECP.AI..L..QLVIT.L.EIF.TG.FLA
Retrocopy QAGSNSTHTPCVTNVETLTGAFLFSLESQTTIGYGFRYISEECPLAIFTLVAQLVITGLAEIFVTGAFLA

Parental  KVARPKKRGETVKFSQHAVVTTHEGQPCLMIRVANMRKSLLIGCQVTGKLLQTSLTKESETVWLDQKNVS
          K.ARPKKR.ET.KFSQ.AV.....G..CLM.RVANMRKSLLI.CQ.TGKLL..S.T.E.E.....Q..V.
Retrocopy KLARPKKRSETIKFSQVAVICRRQGKLCLMVRVANMRKSLLIQCQLTGKLLHPSVTQEGEKTLVHQSPVD

Parental  FQVDTSSDSPFLILPLTFYHLIDDNSPLRAWAAKDPELAEFELLVIMSATIEPTSATCQVRTSYLPDEIL
          F..D.S.D.PFLILPLTFYH..D..SPL....A.......FELLV...AT.E.T.ATCQ.RTSY.P.EIL
Retrocopy FYMDSSGDCPFLILPLTFYHVLDEHSPLAGLNARNLRRHDFELLVTLNATMESTAATCQSRTSYIPQEIL

Parental  WGYEFPPVVSLSSSGKYVANFTFFDKV
          .GYEF.PV......G.YVA.F.FFDKV
Retrocopy FGYEFRPVLFSTTGGRYVADFNFFDKV

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_21 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tnig_21 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gadus morhua	ENSGMOG00000012121	1 retrocopy	retro_gmor_1,
Tetraodon nigroviridis	ENSTNIG00000006226	1 retrocopy	retro_tnig_21 ,
Tetraodon nigroviridis	ENSTNIG00000006480	1 retrocopy	retro_tnig_7,