RetrogeneDB ID: retro_gmor_13

Retrocopy location

• Organism: Cod (Gadus morhua)
• Coordinates: GeneScaffold_2199:265780..266893(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGMOG00000019881
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: SSTR5 (2 of 2)
• Ensembl ID: ENSGMOG00000018538
• Aliases: None
• Description: somatostatin receptor 5 [Source:HGNC Symbol;Acc:11334]

Sequence

>retro_gmor_13
ATGGACCCCTGGATCTTCCCGTCGTCGGCCCTCAACCTGACGGAGCCCCTGATGTACGAGAGCTTCGTGCAGGCCAACGA
CTCGGAGGGCCACGGCAACTACACCGACCCCAGCTTCGACCGCACCAGCACGGTGGTCCTCACCTGCCTGTACTTCCTGG
TGTGCACGGTCGGCCTCTGCGGCAACGCGCTGGTGATCTACGTCATCCTGCGCTACGCCAAGATGAAGACCGTCACCAAC
ATCTACATCCTCAACCTGGCAGTGGCCGACGTCCTCTTCATGCTGGGCCTGCCCTTCATCGCCATCCAGCTGGCGCTGGT
GCACTGGCCCTTCGGCCCCGTGCTGTGCCGCGTGGTGATGACGCTGGACTCCCTGAACCAGTTCACCTCCATCTTCTGCC
TGATGGTGATGAGCATCGACCGCTACCTGGCCGTGGTGCACCCCATCCGCTCCACCAAGTGGCGCAAGCCCCGCATGGCC
AAGACCATCAACCTGACGGTGTGGGGCGTGTCCCTGCTGGTCAACCTGCCCATCGTCATCTACAGCGGCCTGATCACCAA
GCACGACGACTGCTTCTGCACCATCGTGTGGCCCGAGCCCCAGGAGGCCTACTACACGGCCTTCATGTTCTACACCTTCA
TCCTGGGCTTCTTCCTGCCCCTGATGGTCATCTGCATGTGCTACCTGCTCATCATCGTCAAGCTCAAGTCCTCGGGCCTC
CGGGTGGGCTCCACCAAGAGGAAGCGCTCCGAGCGGAAGGTGACGCGCATGGTGTCCATCGTGGTGGCCGTGTTCGTCTT
CTGCTGGCTGCCGTTCTACGTGTTCAACGTCACCTCGGTGACGGGCACCATCAGCACCACGCCGGTGCTTCGGAGCACCT
TCGCCTTCGTGGTGGTGCTGGGCTACGCCAACAGCTGCGCCAACCCCATCCTGTACGCCTTCCTGTCGGAGAACTTCAAG
AAGAGCTTCCAGAACGTGCTGTGTCTGAAGAAGGTGGGCGGGCTGGACGAGATCGACCGCAGCGACAGCCGGCAGGACAA
GTCGCGCATCATGAACGAGCCCACGGAGACCCAGAGCACGCTGCTCAACGGGGACCTGCAGACCAGCATCTGA

Alignment

ORF - retro_gmor_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.69 %
• Parental protein coverage: 96.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FEGSSTLLTALVSLTVMVVGLAGNTLAIYVVMRHAKMKTVTNIYILNLAVADELYIAGLPFLTTQNVLSY
          F...ST.........V..VGL.GN.L.IYV..R.AKMKTVTNIYILNLAVAD.L...GLPF...Q..L..
Retrocopy FDRTSTVVLTCLYFLVCTVGLCGNALVIYVILRYAKMKTVTNIYILNLAVADVLFMLGLPFIAIQLALVH

Parental  WPFGSFLCRVVMTADSMTQFTSIFCLTVMSVDRYLAVVHPIRSTRWRHPHVAKGVSVAVWAVSFVVVLPV
          WPFG..LCRVVMT.DS..QFTSIFCL.VMS.DRYLAVVHPIRST.WR.P..AK.....VW.VS..V.LP.
Retrocopy WPFGPVLCRVVMTLDSLNQFTSIFCLMVMSIDRYLAVVHPIRSTKWRKPRMAKTINLTVWGVSLLVNLPI

Parental  VIFSDVQETFNS--CNMIWPEPKNVWSTAFILYTATLGFFGPLFIICLCYLLIVIKVKSSGMRAGFTKRR
          VI.S..........C...WPEP.....TAF..YT..LGFF.PL..IC.CYLLI..K.KSSG.R.G.TKR.
Retrocopy VIYSGLITKHDDCFCTIVWPEPQEAYYTAFMFYTFILGFFLPLMVICMCYLLIIVKLKSSGLRVGSTKRK

Parental  RSERKVTRMVVVIVVVFVLCWLPFFIINIVNLVVIIPESSATAGIYFFSVILSYANSCANPLLYGFLSDN
          RSERKVTRMV...V.VFV.CWLPF...N.......I...........F.V.L.YANSCANP.LY.FLS.N
Retrocopy RSERKVTRMVSIVVAVFVFCWLPFYVFNVTSVTGTISTTPVLRSTFAFVVVLGYANSCANPILYAFLSEN

Parental  FRQSFK
          F..SF.
Retrocopy FKKSFQ

Legend:

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

Expression

RNA-Seq

Gadus morhua was not studied using RNA-Seq expression data.

ChIP-Seq

Gadus morhua was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_gmor_13 retrocopy.

TSS

Gadus morhua was not studied using FANTOM5 data.

Lab

retro_gmor_13 was not experimentally validated.

Homology

Retrocopy orthology:

Gadus morhua does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Gasterosteus aculeatus	ENSGACG00000018944	2 retrocopies	retro_gacu_1, retro_gacu_11,
Gadus morhua	ENSGMOG00000018538	1 retrocopy	retro_gmor_13 ,
Oreochromis niloticus	ENSONIG00000017693	1 retrocopy	retro_onil_17,
Tetraodon nigroviridis	ENSTNIG00000014076	1 retrocopy	retro_tnig_9,
Xiphophorus maculatus	ENSXMAG00000012731	1 retrocopy	retro_xmac_18,