Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u12609.006

ChromosomeExonStartStopDirection
chr2H1560839277560838377-
chr2H2560839592560839583-
chr2H3560840111560839880-
chr2H4560841176560840973-
chr2H5560841429560841263-


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB00.4487480
morexETI3.057400
morexLEA000
morexEPI01.66350.71472
morexROO000
morexROO20.0000000039690400
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM0.97697900
morexLOD0.65923600
morexPAL0.60972900
morexSEN000



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g36660.1 +3 8e-161 323 164/192 (85%) protein|calmodulin binding protein, putative, expressed
TAIR PP10 AT5G57580 @ ARAPORT
AT5G57580.1 @ TAIR		 +3 3e-78 214 106/188 (56%) Symbols: | Calmodulin-binding protein | chr5:23314994-23317683 REVERSE LENGTH=647
BRACH PP3 Bradi3g46060.1.p +3 4e-139 283 146/203 (72%) pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (1514 bp)

>BART1_0-u12609.006 1514 150831_barley_pseudomolecules
TTGTAGTGTACAAGAAACATTACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAA
AGATTGGAAAGGACGGTGCATTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTG
AACATTTTCTTCAACTTCTTGTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTACTG
GCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTG
GCAAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAACA
TATATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTACTG
AAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATGATTGGATCAATG
TTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCACAA
CAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTCTC
AGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGAGCAGTACGACTA
AAGGGTCTAAAGAACGAGACAAGAATTGCATCCAACGGGAATCAAGTAGCAATATATGAA
GCCAATCCTCAGGACATTTCACCAAGTATTACCATGCAATATGGCATGAGTTCATTGATC
CCTGAAGGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCATCAAGAAGCTCCAACATG
CTAGCATTTGGACCTCCACCACAGCAGCCGCATAACTTCGAATTCTCAGCATTTGGTCTG
TCCATGCAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTGGACGGTTGCAGGAGAAC
CGCGGTGGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGAGAAGCCATGACATGCTG
GAGAATGAAGAAGAGATGCAACATATGCTGCGCATTCTTAGCGGCGGGGCAGCAGCAAAC
ATGAATAATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTACCGGACTTCAACTTCGTG
GATGATCGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGCTTAAGATTAAGGCTGCC
ATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGAGCTCAGCTTGTTGAG
CTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTCTCGTCTTGTATAATT
GCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTATGAATGGACTCACGT
TGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTTGGTGTTCAGAAAAAC
AAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTGGAGATTGGACACTTG
AAACAGGCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTGCATTAAATGGGCAAATG
AGTTACTCCCTCCA



Protein Sequence (218 aa)

>BART1_0-u12609.006 218 150831_barley_pseudomolecules
VVYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQLLVKDQQKLRSILGTG
MSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTGLIADDQFISTENLTE
NQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVANVSTSYTSYDSAHSQ
KQLARGHANIERSLMSSTTKGSKERDKNCIQRESSSNI