RetrogeneDB ID: retro_rnor_9

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: X:121200397..121201618(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000033628
• Aliases: Tesl, Tes
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Tes
• Ensembl ID: ENSRNOG00000032978
• Aliases: None
• Description: Testin [Source:UniProtKB/Swiss-Prot;Acc:Q2LAP6]

Sequence

>retro_rnor_9
ATGGACTTAGGTCACAAGCCAGGATTGGGGGCCCCATGTCTAAAATGCAAAGAAAAATGTGCAGGGTTTGAGCTACACTT
TTGGAGGAAAATATGTCGTAATTGCAAATGTGGACAAGAAGATCATGACATACTCCTAAGCAATGATGAGGACCAGAAAG
TCGGGAGACTCTTTGAACACACTGAGTACACTAACATAATCACCAAGCTGAAGTCAGAAGGAATGCCTATGTTCAAACAC
AATGTTATGGCAATGACCAATCCATGTACTGCCGAGAAGAAATTCTTCAACACTGGTAGCTATGAGTGGGCTCCCCCTGT
CCAGAGGCAGGAACTGGCCAGGAATTACATGGCTAAGGAGAAACTGTCATTGTCTGGTTCATGGGCAACACAGTACCTGA
AGAAGCAGCTATCGAAGCAGCTTCCTGCACATGACCAGGACCCTTCTAAGTGCCATGAGTTGTCTCCCAATGAAGTTAGG
GAGATGGAGCAGTTTATAAAGAAATATAAGAATGAGGCTTTGGGAGTGGGTGCCATGAAGCATCTCTCTGAGGTGAATGA
TCAGGGTGACAAGGTGCAGAACCCTGCCAGAGTCAGAAACACCACATCAGCATTGAGTTCTAAGGAAAAGTCTACAGAGC
CTAAGAAGACCCAATATTCTTGTTACTGTTGCAAACAACCCATAAAAGAAGGAGATACAGCCATCTATGCTGAAAGAGCT
GGGTACAATAAACTCTGGCACCCATCTTGTTTTATCTGCAGCACCTGTGGGGAACTCCTGGTGCACATGATTTACTTCTG
GAAGAACGGGAAGCTGTACTGTGGCAGACATTACTGTGACAGTGAGAAGCCCCGCTGTGCTGGCTGTGATGAACTGATAT
TTAGCAAGGAATACACCCAAGCAGAAAACCAGAATTGGCATTTGAAACACTTCTCTTGCTTTGATTGTGACAAAATTCTG
GCTGGAAAAATTTATGTGATGGTCAATGATAAGCCTGTGTGCAAACCCTGCTACATGAAGAACCATGCTGTGAAGTGTCA
AGAATGCCAAAGTGTCATCGACCCGGAATTGCAGAGAGTAACATATAATAATTTTAGTTGGCATGCATCTTCAGAGTGCT
TCCTGTGCTCCTGCTGCAGAAAGTGTCTTTTTGGACAGAAGTTCATGCCTGTAAATGGGCTGGTTTTCTGTTCCATGGAA
TGTAAGAAAATGATGTCTTAA

Alignment

ORF - retro_rnor_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.56 %
• Parental protein coverage: 97.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGLGHEQGFGAPCLKCKENCEGFELHFWRKICRNCKCGQEEHDVLLSTEEDRKVGRLFEDTKYTTLIAKL
          M.LGH..G.GAPCLKCKE.C.GFELHFWRKICRNCKCGQE.HD.LLS..ED.KVGRLFE.T.YT..I.KL
Retrocopy MDLGHKPGLGAPCLKCKEKCAGFELHFWRKICRNCKCGQEDHDILLSNDEDQKVGRLFEHTEYTNIITKL

Parental  KSDGIPMYKRNVMILTNPVAAKKNVSINTVTYEWAPPVQNQALARQYMQMLPKEKQPVAGSEGAQYRKKQ
          KS.G.PM.K.NVM..TNP..A.K....NT..YEWAPPVQ.Q.LAR.YM....KEK....GS...QY.KKQ
Retrocopy KSEGMPMFKHNVMAMTNPCTAEKKF-FNTGSYEWAPPVQRQELARNYMA---KEKLSLSGSWATQYLKKQ

Parental  LAKQLPAHDQDPSKCHELSPKEVKEMEQFVKKYKSEALGVGDVKLPSEMNAQGDKVHNPAGDRNTPAAVG
          L.KQLPAHDQDPSKCHELSP.EV.EMEQF.KKYK.EALGVG..K..SE.N.QGDKV.NPA..RNT..A..
Retrocopy LSKQLPAHDQDPSKCHELSPNEVREMEQFIKKYKNEALGVGAMKHLSEVNDQGDKVQNPARVRNTTSALS

Parental  SKDKSAEAKKTQYSCYCCKNTMREGDPAIYAERAGYDKLWHPACFICSTCGELLVDMIYFWKNGKLYCGR
          SK.KS.E.KKTQYSCYCCK....EGD.AIYAERAGY.KLWHP.CFICSTCGELLV.MIYFWKNGKLYCGR
Retrocopy SKEKSTEPKKTQYSCYCCKQPIKEGDTAIYAERAGYNKLWHPSCFICSTCGELLVHMIYFWKNGKLYCGR

Parental  HYCDSEKPRCAGCDELIFSNEYTQAENQNWHLKHFCCFDCDNILAGKIYVMVRDKPVCKPCYVKNHAVVC
          HYCDSEKPRCAGCDELIFS.EYTQAENQNWHLKHF.CFDCD.ILAGKIYVMV.DKPVCKPCY.KNHAV.C
Retrocopy HYCDSEKPRCAGCDELIFSKEYTQAENQNWHLKHFSCFDCDKILAGKIYVMVNDKPVCKPCYMKNHAVKC

Parental  QGCHNAIDPEVQRVTYNNFSWHASTECFLCSCCSKCLIGQKFMPVEGMVFCSVECKKMMS
          Q.C...IDPE.QRVTYNNFSWHAS.ECFLCSCC.KCL.GQKFMPV.G.VFCS.ECKKMMS
Retrocopy QECQSVIDPELQRVTYNNFSWHASSECFLCSCCRKCLFGQKFMPVNGLVFCSMECKKMMS

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	8.27 RPM
SRP017611_kidney	0.00 RPM	12.56 RPM
SRP017611_liver	0.00 RPM	1.95 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_9 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_9 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_9 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005193	2 retrocopies	retro_cjac_3361, retro_cjac_3870,
Mus musculus	ENSMUSG00000029552	3 retrocopies	retro_mmus_253, retro_mmus_3438, retro_mmus_3586,
Rattus norvegicus	ENSRNOG00000032978	3 retrocopies	retro_rnor_2974, retro_rnor_2975, retro_rnor_9 ,