- Transcript BART1_0-u18453.001
- Transcript IDBART1_0-u18453.001
- Gene IDBART1_0-u18453
Exon Structure of BART1_0-u18453.001
Chromosome | Exon | Start | Stop | Direction |
---|---|---|---|---|
chr3H | 1 | 47557249 | 47556979 | + |
chr3H | 2 | 47558732 | 47558463 | + |
chr3H | 3 | 47559206 | 47559088 | + |
chr3H | 4 | 47559495 | 47559319 | + |
chr3H | 5 | 47559849 | 47559802 | + |
chr3H | 6 | 47560084 | 47560020 | + |
chr3H | 7 | 47560511 | 47560173 | + |
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 materialsSample | Treatment | Rep 1 | Rep 2 | Rep 3 |
---|---|---|---|---|
morex | EMB | 2.45973 | 0 | 0 |
morex | ETI | 1.4686 | 0.671828 | 1.27702 |
morex | LEA | 0.475349 | 0 | 0 |
morex | EPI | 0.871624 | 0 | 0 |
morex | ROO | 1.31662 | 0 | 0 |
morex | ROO2 | 1.76243 | 0.683959 | 1.9475 |
morex | NOD | 0.426843 | 2.22294 | 0.10247 |
morex | RAC | 2.29832 | 1.47828 | 1.27949 |
morex | INF1 | 0.0059604 | 0.00000610075 | 2.33275 |
morex | INF2 | 0 | 0 | 1.56642 |
morex | CAR5 | 0 | 2.75366 | 0.881904 |
morex | CAR15 | 0.213168 | 0 | 0 |
morex | LEM | 2.55678 | 0.29226 | 1.17363 |
morex | LOD | 1.75197 | 1.39205 | 1.64817 |
morex | PAL | 0.633562 | 2.08444 | 1.27724 |
morex | SEN | 0.842953 | 1.0098 | 0.661244 |
Homology to Model Species (BLASTX to E-value < 1e-30)
Database | Hit | Frame | E-value | Score | % Identity | Description |
---|---|---|---|---|---|---|
Rice PP7 | LOC_Os10g41730.1 | +2 | 2e-94 | 283 | 143/179 (80%) | protein|expressed protein |
TAIR PP10 | AT5G43822 @ ARAPORT AT5G43822.1 @ TAIR |
+2 | 2e-42 | 148 | 77/180 (43%) | Symbols: | Pentatricopeptide repeat (PPR) superfamily protein | chr5:17620830-17621868 FORWARD LENGTH=195 |
BRACH PP3 | Bradi3g33790.2.p | +2 | 7e-109 | 319 | 156/179 (87%) | pacid=32818824 transcript=Bradi3g33790.2 locus=Bradi3g33790 ID=Bradi3g33790.2.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 (1289 bp)
>BART1_0-u18453.001 1289 150831_barley_pseudomolecules CTCATTATATGAAATTTGGGGAATTCGATTATTATTTTTGCCACGGTTTACTTTGCATTT TGACAATTTGCCACTGGTCGCATTGTAATTGCCTTTTAGCCACTATTCACATTGGGGATT AGACTTGGACGTTTGCCCTCTTACAGGTCGGGCCCGCTTGAAATCCCGGTTTTACCCCCG GCCAGCCTCCCTGCTCTTCCTCGAGGCGACACACCGGTGGACGGCGACGGTGGTAATCGA CGGCGGAGGCTCCCTCCCGGCAACAACGACAGTTGACCTGAGCCCAGCCTATCATACGTG CCTCGTTCTCAGCAGCTGCAGACGTTCCCTAAGAAAATAGGCAAGCACTGCCGAGAAATC GATCGAGGACCGGGGTTGCTAAGGGAAACGAGATGAGCGGTTGATCGGGATGGAGGTTGT GGTGCGGAAGATGCAGCAGCGGGTGAGGAAGGCACGGGAGGAGACGGAGCGATGGGATGA CCTCAACTCCCGCCTCCTGTCCCAGTTCTCCAATGCTGCCGCCATCATCACCCGCCTTCT GGTACTTGGAGATGCTAAAAATCATGGTATCCTGCGGTGTGTGCCCAACATCAGGGAGGA TCTCTTGGGGGCACAGATGAGGAGCCTGGAGCTCATATTTGTTTCAATGAGGGAGACTCT GGAGGAGTTCAGTGGCATTGCCAAAGGTTTGAGCAAGGTACTGCGCGATGCTAATCAGAT GGTGAGGGGTGGATTGGCACTCACTGGGAAACAATTGCAGTTACAAGTGGGAATTTTGCC AACTATTGCAGACTGCTTGGGTGGGCTACAAACACTGTCTGAAATGCACCAGGCTGAGTA TGCGCTAAAATCATCAATCATCTCTTTGTTGACATGGAAAAGCAGTTCAAGTGAAATCGC TGCAATGCGTCAACTCTTGGTAGACCAACCAAACATACCGAAAGATGAAGTGCAATCTGT CTTCGACATTATATTTGCAGATGAAATTTGCTAAGTTGAGCATGCATCCTACTATTGGAA GCCCTATTGCCAAGACATGTTGAAGCAACTGTATTTTGATCTACTCCTTCCGTTCATAAA TATAAGCTTTTCTGACCTTTCTGTGAATCGGATATATATAGACACGTTTTAGTGTCTTTG TTCACTCATTTCACTCGTGTATGTAGTCCATATTGAAATATCCAAACCATGGTATATTTG TGAACGGAGGGAGTACTTTCTTATCTGAACAAAGTGTTGAGTAAATAGGCAATTTTCCGA GTACATTAATCCACAAAATAATAACTAGC
Protein Sequence (194 aa)
>BART1_0-u18453.001 194 150831_barley_pseudomolecules MEVVVRKMQQRVRKAREETERWDDLNSRLLSQFSNAAAIITRLLVLGDAKNHGILRCVPN IREDLLGAQMRSLELIFVSMRETLEEFSGIAKGLSKVLRDANQMVRGGLALTGKQLQLQV GILPTIADCLGGLQTLSEMHQAEYALKSSIISLLTWKSSSSEIAAMRQLLVDQPNIPKDE VQSVFDIIFADEIC