RetrogeneDB ID:

retro_rnor_1535

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:2:136132450..136133156(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Srsf7
Ensembl ID:ENSRNOG00000027360
Aliases:Srsf7, Sfrs7
Description:splicing factor, arginine/serine-rich 7 [Source:RefSeq peptide;Acc:NP_001034124]


Retrocopy-Parental alignment summary:






>retro_rnor_1535
ATGTCATGTTACAGGTGGTATGGAGGAGAAAGCAGGGCATATGTTGGTAACCTGGGAACTAGTGCTGGTTAAGGAGGGTT
AGAAAGGGCATTCAGTTACTATGGGCCCTTAAGAACTGTATGGATTGCCAGAAATCCTCCAGGATTTGCCTTTGTGGAAT
TTGAAGACTCTAGAGATGCAGAGGATGCCGTTTGAGGGTTGGATGGGAAAGTGATTTGTGGTTCTCAAGTGAGAGTTGAA
TTATCAACAGGCATGCCTTGGAGATCTCGTTTTGATAGACCACCTGCCCATCGTCCCTTTGATCCTAATGATAGACGCTA
TGAGTGTGGTGAAAGGGGACAATATGCTTGTGACCGTCATTGCTATAGCCAATGAAGGAGAAGCAGGTCATGATCTAGAT
CACATTTGGATCCAAGGGAAGGAGATACTATGCAGCAGGAGCAGCGGAAGGAGGTCAAGTTCACCATCTCTTCAACAATC
AAGGTCTGTGTCTCTTCGTAGATCAATATCAGCTCCACTCAGAAGATCTAGGTCTGGTTCTATAATAGGATTGAGGTACT
TCCCATCCTGCTCAGGGTTGAGATCAAGACCCAGGTCTATTTCATGACCAAGAAGCAGCTGATCAAAATCCAGATCTCCA
TCTCCTGAAAGAAGTCGTTCCCTATCAGGAAGTCTACATAGAAGTGCAAGCCCAGAAAGAATCAAC

ORF - retro_rnor_1535 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.5 %
Parental protein coverage: 100. %
Number of stop codons detected: 6
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMSRYGRYGGETKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGK
MS.Y..YGGE...YVGNLGT.AG.G.LERAFSYYGPLRTVWIARNPPGFAFVEFED.RDAEDAV.GLDGK
RetrocopyMSCYRWYGGESRAYVGNLGTSAG*GGLERAFSYYGPLRTVWIARNPPGFAFVEFEDSRDAEDAV*GLDGK
ParentalVICGSRVRVELSTGMPRRSRFDRPPARRPFDPNDRCYECGEKGHYAYDCHRYSRRRRSRSRSRSH-SRSR
VICGS.VRVELSTGMP.RSRFDRPPA.RPFDPNDR.YECGE.G.YA.D.H.YS..RRSRS.SRSH...S.
RetrocopyVICGSQVRVELSTGMPWRSRFDRPPAHRPFDPNDRRYECGERGQYACDRHCYSQ*RRSRS*SRSH<FGSK
ParentalGRRYSR-SRSRSRGRRSRSASPRRSRSVSLRRSRSASLRRSRSGSIIGSRYFQSRSRSRSRSRSISRPRS
GRRY...SRS..R..RS.S.S...SRSVSLRRS.SA.LRRSRSGSIIG.RYF.S.S..RSR.RSIS.PRS
RetrocopyGRRYYA<SRSSGR--RSSSPSLQQSRSVSLRRSISAPLRRSRSGSIIGLRYFPSCSGLRSRPRSIS*PRS
ParentalSRSKSRSPSPKRSRSPSGSPHRSASPERMD
S.SKSRSPSP.RSRS.SGS.HRSASPER..
RetrocopyS*SKSRSPSPERSRSLSGSLHRSASPERIN

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 38 .03 RPM
SRP017611_kidney 0 .00 RPM 33 .57 RPM
SRP017611_liver 0 .00 RPM 25 .55 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1535 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1535 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1535 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 13 parental genes, and 36 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000159881 retrocopy
Canis familiaris ENSCAFG000000296201 retrocopy
Dasypus novemcinctus ENSDNOG000000078212 retrocopies
Macropus eugenii ENSMEUG000000164591 retrocopy
Myotis lucifugus ENSMLUG000000095362 retrocopies
Monodelphis domestica ENSMODG000000086691 retrocopy
Mus musculus ENSMUSG000000240971 retrocopy
Otolemur garnettii ENSOGAG000000101692 retrocopies
Rattus norvegicus ENSRNOG0000000052011 retrocopies
Rattus norvegicus ENSRNOG000000055131 retrocopy
Rattus norvegicus ENSRNOG000000063801 retrocopy
Rattus norvegicus ENSRNOG00000027360 11 retrocopies
Sarcophilus harrisii ENSSHAG000000159701 retrocopy



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