- Transcript BART1_0-u32165.009
- Transcript IDBART1_0-u32165.009
- Gene IDBART1_0-u32165
Barley RTD
Exon Structure of BART1_0-u32165.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 549098 | 548776 | + |
| chr5H | 2 | 551456 | 551216 | + |
| chr5H | 3 | 552197 | 551697 | + |
| chr5H | 4 | 553152 | 552317 | + |
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 | 5.36761 | 0.51575 | 0 |
| morex | ETI | 3.81166 | 1.57011 | 3.93927 |
| morex | LEA | 0.508363 | 0 | 0 |
| morex | EPI | 3.11259 | 4.95828 | 4.61447 |
| morex | ROO | 2.44355 | 0.199895 | 0 |
| morex | ROO2 | 1.73246 | 4.37191 | 1.33203 |
| morex | NOD | 0.442972 | 8.15481 | 2.821 |
| morex | RAC | 2.22649 | 0 | 0.000000000317864 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.407487 | 0 |
| morex | CAR5 | 0.203982 | 0.211612 | 0 |
| morex | CAR15 | 0 | 0.281918 | 0 |
| morex | LEM | 0.0000000793899 | 0.51396 | 2.80603 |
| morex | LOD | 4.44524 | 0.438999 | 4.20167 |
| morex | PAL | 0.00000000535711 | 1.74868 | 0.818919 |
| morex | SEN | 0.949544 | 1.42794 | 1.9273 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g31470.2 | +3 | 0.0 | 592 | 342/402 (85%) | protein|peptidase, trypsin-like serine and cysteine proteases, putative, expressed |
| TAIR PP10 | AT5G45030 @ ARAPORT AT5G45030.2 @ TAIR |
+3 | 2e-143 | 430 | 251/399 (63%) | Symbols: | Trypsin family protein | chr5:18172981-18175238 FORWARD LENGTH=607 |
| BRACH PP3 | Bradi4g00270.1.p | +3 | 0.0 | 635 | 359/402 (89%) | pacid=32787831 transcript=Bradi4g00270.1 locus=Bradi4g00270 ID=Bradi4g00270.1.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 (1901 bp)
>BART1_0-u32165.009 1901 150831_barley_pseudomolecules ATCAAACAAGGTGTTGTGTGTATGCCTAATCCAATATAAAGAAGCCCTAAAAAAGCTCCG AATTTGGCAGGAAATTACAGCGGAAGTGCCACACACATCCATCCATCCCCGGTCAGATCC ACCTCCGCCGCCGGCCTCCCAGCTCGCGCGACCTCAAGATCCGGCGCCGTCGCCCCTGCC CCTGCAAGCAGCGCAGCCCCTCTGACCACCTCGGTAATGGCGCCGTCGCCCCTGCCCCTG CCCCTGCCCCTGCAAGCAGCGCAGCCCCTCTGACCACCTCTCCCCGCACCGTCTCCGTCG CCGCTGCCTCCTCCACGCCCGAGGTAGCTAGCCTTGAAACATATGGGACTTTGGGTGCCA TCGTGAAGAGTCGAACTGGCAACAAGCAAGTAGGCTTCCTAACGAACAGACATGTTGCAG TTGACCTGGATTATCCTAATCAAAAGATGTTCCATCCGTTGCCCCCTAATCTTGGACCTG GAGTTTACCTAGGTGCCGTTGAGAGAGCCACGTCTTTTATCACGGATGATGTTTGGTATG GTATATATGCGGGAACAAACCCAGAAACATTTGTCCGGGCTGATGGTGCATTTATACCAT TTGCGGACGACTTTGACATTACTAATGTCAGCACTTCAGTTAAAGGAGTCGGACTCATTG GTGATATCAAGGCAATCGATCTGCAGTCCCCGATTGGCAGTCTCATCGGGAAGCAAGTTG TGAAAGTTGGAAGAAGCTCAGGCCATACGACAGGGACCGTCATGGCATATGCTCTTGAAT ACAACGATGAGAAGGGCATATGCTTTTTTACCGACTTCCTCGTCGTCGGGGAGAACCAGC AAACGTTTGATCTTGAAGGGGACAGCGGAAGCCTTATAATCTTGACAGGACAAGATGGTG AGAAGCCACAGCCTATAGGGATTATATGGGGTGGCACGGCCAACCGTGGAAGGTTGAAGC TCAAAAGTGGGCAGGGCCCGGAGAACTGGACGAGTGGTGTTGATCTGGGGCGCCTCCTTG ACCTCCTCGAGCTCGATCTGATCACGACAAGCGAAGGGCTGCAAGAGGCCCTGGAGGAGC AGAGGATCACCCTAGCAGCCGCCGTGGCAGCGGCCAATTCTACGGCCACCGAGTCGTCGC CCGTGGCCGCCACACCGCAAGAAGCCGAGAAAGTGGACAAGATCTACGAGCCCCTGGGGA TCAACATCCAGCAGCTCCCCCGGGACGGCCCCGCCAACTCGACGGAGCAGCCCTTCGGGC CCGGCGAGTTCCACGTCGACACGGTGGAAGGGATAAATAGCAGCAACGTGGAGGAGCGGC AGTTCATCCCGAACCTGATGGGCATGTCCTCGATGCGCGACGAGCAAGGAGGCAACGGCG AGCTGGAAAACAACAACAGCTGCAACCTGGAGAGCCCGGCGGAGGACAACATCTGCTTCT CGCTGCACCTGGGCGAGCGGGAGCCTAAGAGGCTCCGGTCCGACACGACGACGGTGGACA TAGACCTGCAGAAATGACGGTTCCTTTCGTCGCCCCCCTCTGTATGCTGCGGGGTCGCCG TTGTTGTTGTTATCATTGGAGGCGATTGCGATTTGTGCATTGTATGCATTGGGATGGCAG AATAAAACCCCATTGATCGATCTGTGAGATGAGGACCTCTTGTTGTATTGCTCGCTGGGA CCCACAGAGTTTTACTACGTGTACTAGTTTCAGGTGAAAATGATTGTGCTGTCAGCTGTA TGTGATTTGATTTAACTCCCAACTCCTCAGCCAACTAACCAGCATGTGAATGTGAATAAT GGAAGGAAAATGCTACGGCCTACGGCCTGTGTGATGTGTATCTACCAACTGTCGAGTACT CCTAAAGGAGGAGTTGATAGCTTTCGTTTCAAATTTTTTTC
Protein Sequence (356 aa)
>BART1_0-u32165.009 356 150831_barley_pseudomolecules MFHPLPPNLGPGVYLGAVERATSFITDDVWYGIYAGTNPETFVRADGAFIPFADDFDITN VSTSVKGVGLIGDIKAIDLQSPIGSLIGKQVVKVGRSSGHTTGTVMAYALEYNDEKGICF FTDFLVVGENQQTFDLEGDSGSLIILTGQDGEKPQPIGIIWGGTANRGRLKLKSGQGPEN WTSGVDLGRLLDLLELDLITTSEGLQEALEEQRITLAAAVAAANSTATESSPVAATPQEA EKVDKIYEPLGINIQQLPRDGPANSTEQPFGPGEFHVDTVEGINSSNVEERQFIPNLMGM SSMRDEQGGNGELENNNSCNLESPAEDNICFSLHLGEREPKRLRSDTTTVDIDLQK