- Transcript BART1_0-u20988.002
- Transcript IDBART1_0-u20988.002
- Gene IDBART1_0-u20988
Barley RTD
Exon Structure of BART1_0-u20988.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 413471866 | 413469036 | - |
| chr3H | 2 | 413472753 | 413472688 | - |
| chr3H | 3 | 413474829 | 413474390 | - |
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
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0.0171116 | 10.8563 | 2.0225 |
| morex | ETI | 2.72182 | 0.0975638 | 0.00000956098 |
| morex | LEA | 0.00675607 | 6.17155 | 0.125848 |
| morex | EPI | 0.242228 | 0.00000227869 | 0.363016 |
| morex | ROO | 8.04365 | 7.4183 | 7.76796 |
| morex | ROO2 | 10.2478 | 5.94282 | 5.96933 |
| morex | NOD | 4.71703 | 5.57614 | 0.00000316762 |
| morex | RAC | 3.89388 | 1.66612 | 14.9197 |
| morex | INF1 | 13.4354 | 9.36486 | 3.0623 |
| morex | INF2 | 5.89859 | 5.40227 | 10.4483 |
| morex | CAR5 | 11.3551 | 8.38707 | 14.8975 |
| morex | CAR15 | 5.62565 | 2.5879 | 11.7777 |
| morex | LEM | 0.241356 | 14.197 | 0.00183829 |
| morex | LOD | 0.000393395 | 0.017696 | 2.62969 |
| morex | PAL | 6.10717 | 3.77543 | 0.0503069 |
| morex | SEN | 0.000176671 | 8.55991 | 4.59305 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g43372.1 | +2 | 0.0 | 823 | 489/648 (75%) | protein|expressed protein |
| TAIR PP10 | AT1G64140 @ ARAPORT AT1G64140.1 @ TAIR |
+2 | 4e-169 | 513 | 302/545 (55%) | Symbols: | BEST Arabidopsis thaliana protein match is: loricrin-related (TAIR:AT5G64550.1); Has 3596 Blast hits to 2004 proteins in 150 species: Archae - 0; Bacteria - 54; Metazoa - 1597; Fungi - 38; Plants - 513; Viruses - 9; Other Eukaryotes - 1385 (source: NCBI BLink). | chr1:23804069-23806009 REVERSE LENGTH=646 |
| BRACH PP3 | Bradi2g43880.2.p | +2 | 0.0 | 982 | 543/635 (86%) | pacid=32778732 transcript=Bradi2g43880.2 locus=Bradi2g43880 ID=Bradi2g43880.2.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 (3337 bp)
>BART1_0-u20988.002 3337 150831_barley_pseudomolecules CTTTCATTCCAGGGGTCAAAATCGTGAAAAAAAAATCCGAGAAGAGAAGCGGTCGTACCT GGACAAGATGCCAAACCAGGTGGAAAGGGGAGGGCACGAGTGCATTGCCTTTTGCCCGCT TTCCAATTTCCCCTCGCCCACAACGGGGTGGCCACAGCGATTTACCTGTGGCGCCCCGAC CCGCCCCACTCCTTCCTCTCTCTCTCTCTCTTTTATAGCGCTCCCCCTGCGCGCCTGCGT CCTCGGTTTTTCTCCGCTGAGCTTTCCTTCAACCCCGCTCAGCTCCCTCCCTTCCTACAA ATCTGGTCTGGTGGGCGCTGTTCGCCGCGGCGGGTCTCTCGCGCCCGCGCTCCCGCAACA ACCTCAAAACCCTAGCCATCCTCGCGACCCAGTCGATTGGATCGACCGCTTCCTCCTCCT CCGCCCAGACCCAGACCCAGGGACCGCTGATTTCACTCCTGTGTGTTTTCAACTCACTTG GGATCCGCGAGAGTGCTGCTATACTGCAGGATCATCGCTTTCTGTTTGGCCTGAGCTGTG GAAGTTTCTAAGTAGAAACTGAGGGTCAGTTCAAAACTTTATCCCACTCACCCCATACAT ACTGGCGAGAAATGGATCGTGATGATGTATCTGGCTTTGTTAGCGGGGGTTGCAAGCTGT TCTGAGTTTTCTAACCTAGTAGAAGTTAATAAATAAAGTTATGATACCAGGAAGTCAGTC AACTGGCGGTTCTTTTCATTTACTAATTGGTTGATGTTTCCGAATTGGAATGGACAAAAC TTCTCATGGCCTTGGATTTGGTGATAGCATCAACTCGTTAAACACTTCTCATTACCGGAG TTCAGTCCAACACACTGCTCAGCATAGAGACACTACACTTGATTCCACATCATATTCCAG CTTCTCATCCACCAACACAAAAGCCCTGAAAAGGAAGTGGGGTACTATGGCTGGAGCAGA AGGTACTGGGGATGCATTACTCACTCTGGGTTTAGGCCGTTCACCAAGTTCATCTGACAA TAGCAAAGTAAGCTCTGCCACAGCCTGTGCAATGTCTCCATGCTCGCTAAAGGAGGCTGA TGAGGAGTCATCTGTTGATCTTAGCTTGAATTTTGAGCTTTCCCTTGGCAATGATGTTGC ACGTTTTCAAAGGAAATCCTCTGCTGGTTTAGTAGCCAATTCTCCTAAACTGGATCTTCA GTTGAGTTTATCCACTGGCTCACCTGAATCTGCTGTCACTTGTACAAATATGGTGTCACC AAATATTCATGATGGCTTGGACATACCAGTGACCTATTCATTACCAGCCATTATAGGGAA TGGGTCAGCACCGTCTAGTTGGGGTTTTGAGCACTCTGTGGTTTCATCATCATATGCGTC TGAAGCAACATATGCATTTCCATTTTCGAAGATACCCAGACAAGAGAATGGTACTTTGTC TTCACCAGTCATATCGTCAACTATGCCAGCAAGTGTGAAGAGCTCAGTTGCCTGTACTTC GGTGGTAACTAACCCTCAGCAGCGCAATCTTAACACTAAAACCTGCCAGTTCCCTGGATG TGGCAAAGGGGCAAGAGGTGCATCAGGGCATTGTATAGCCCATGGTGGTGGTAGGCGATG CCAGAAAGCTGGTTGCCAGAAGGGTGCTGAAGGAAGGACCATATATTGCAAGGCCCATGG TGGAGGGAGGAGATGTGAGTTTCTTGGATGTACAAAGAGCGCTGAAGGACGCACCGACCA CTGCATTGCCCATGGTGGTGGCCGCCGGTGCAGTAATGATGGCTGCTCCCGTGCTGCCCG AGGAAGATCTGGCTTATGCATCAGGCATGGTGGTGGAAAAAGGTGTCAGCAGGAGAAGTG CACCAAGAGCGCAGAAGGTCATTCTGGCCTCTGCATCTCTCATGGGGGTGGGAGGCGCTG CCAGTTTCCAGAATGTGCAAAGGGTGCACAGGGAAGCACAAAGTTCTGCAAGGCACATGG TGGAGGCAAGCGCTGCACTTTCTTGGGCTGTACCAAAGGAGCTGAAGGCAGCACCCCTTA CTGCAAGGGCCATGGAGGAGGCAAGCGCTGCTTATTTGAGGGTGGTGGAGTGTGCCCCAA GAGCGTGCATGGCGGGACGCAGTACTGTGTTGCGCACGGTGGTGGCAAGAGGTGCGCTAT TTCTGATTGCACCAAGAGTGCTAGAGGGCGGACGGAGTACTGCGTGCGCCATGGTGGTGG CAAGAGATGCAGGTTCGACGGCTGTGTGAAGAGTGCACAGGGGAGCACTGATTTCTGCAA GGCGCATGGGGGAGGCAAACGCTGCTCATGGGGCCTGCCGGGCTCAAGCTTCGGTATTGG CACTGAGCAGTGTGATAAGTTTGCTCGCAGCAAGACTGGCCTCTGTTCAGCTCACACCGC TCTAGTCCAGGACCACTGTGTTCATGGTGGTGGTACATTAGGCCCTGTAATCCACCACTT CGCCGCAGATGTTAAACCCGGCGAGATGGAAGTTGCTGCAGCAGTGAAGGTTGATCCTGT TTCGATGCAGTCGGGGTCTCCATTGCCGGAGCCGGAGGGCAGGGTGCATGGTGGTGGGCT GCTGGCGCTGCTTTCTCGCGGCGGCAACCACACAGGCCCTGTTGGTAACTCCGATAACGG CGCTTCTGTCATGATGGCGTGGATGTGAGCGGGCGGGCATTCTCATCAAGAATTGGTTGC TTCAAGTTTTGATCTGTTTCCAGAGCTAATGCTGTGGCGGGATAAAGTTCCACATTTCAC CAATTGTTGTCCTAGTCGTTTGGAACTGGTAGGACATATATCCTCCGTGTAGAATAAATA AGGGAGAGCGTTGTGGGCTTCTCTGTTATTGTAATGTAATTAATTAATTAATGTCGTCAA ACTGCCCTTGCTTTGTGTTTATTACAATTTGTGTAATCTGATACTACTTCACAGTTCCTA CTTGGATACAATGTCTTCGCAGTTTGCTTTGCTTTGTGTTTCTGGTAACACTGTAGTATG TGCTTTGTGTTTCTGGTAAAGTGGTAATACTGTAGTCTGTAGTACAACTTTTTTGGCGGG TGAGGGTTATCTGGTCATGTCATCAGATAATTCTCTTCCGCCATCAACATCAAGAGATGA ATGTTGATGTCCATATCATTGCTAGAAACTGTAAATTTAGTACCATGAGATGAATGTTGA TAACTCTGCCTATGTTGTCTCAACATAGCCGGTCCAAGCCTGGGTAAAGAAGGAGGATTG TGATAGACTTGACGAGCCAACGTCATAACTCAGTCACTCTTATGAAGATGAAATCCAAAA GATTTTCGTTGGGGTGTAACCCTTTCATCAACGCGCC
Protein Sequence (632 aa)
>BART1_0-u20988.002 632 150831_barley_pseudomolecules MDKTSHGLGFGDSINSLNTSHYRSSVQHTAQHRDTTLDSTSYSSFSSTNTKALKRKWGTM AGAEGTGDALLTLGLGRSPSSSDNSKVSSATACAMSPCSLKEADEESSVDLSLNFELSLG NDVARFQRKSSAGLVANSPKLDLQLSLSTGSPESAVTCTNMVSPNIHDGLDIPVTYSLPA IIGNGSAPSSWGFEHSVVSSSYASEATYAFPFSKIPRQENGTLSSPVISSTMPASVKSSV ACTSVVTNPQQRNLNTKTCQFPGCGKGARGASGHCIAHGGGRRCQKAGCQKGAEGRTIYC KAHGGGRRCEFLGCTKSAEGRTDHCIAHGGGRRCSNDGCSRAARGRSGLCIRHGGGKRCQ QEKCTKSAEGHSGLCISHGGGRRCQFPECAKGAQGSTKFCKAHGGGKRCTFLGCTKGAEG STPYCKGHGGGKRCLFEGGGVCPKSVHGGTQYCVAHGGGKRCAISDCTKSARGRTEYCVR HGGGKRCRFDGCVKSAQGSTDFCKAHGGGKRCSWGLPGSSFGIGTEQCDKFARSKTGLCS AHTALVQDHCVHGGGTLGPVIHHFAADVKPGEMEVAAAVKVDPVSMQSGSPLPEPEGRVH GGGLLALLSRGGNHTGPVGNSDNGASVMMAWM