- Transcript BART1_0-u21354.019
- Transcript IDBART1_0-u21354.019
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460557118 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558163 | 460558101 | - |
| chr3H | 4 | 460558586 | 460558266 | - |
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 | 15.0534 | 0 | 0 |
| morex | ETI | 0 | 0 | 3.28885 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 18.5572 | 7.28667 | 0.0114108 |
| morex | ROO | 0 | 0 | 2.82945 |
| morex | ROO2 | 1.53841 | 2.22757 | 0.96251 |
| morex | NOD | 8.44097 | 3.20437 | 10.181 |
| morex | RAC | 1.86827 | 1.09204 | 0.454566 |
| morex | INF1 | 0.368875 | 0.978141 | 0.121484 |
| morex | INF2 | 0 | 2.09758 | 6.88146 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.89289 | 1.89552 | 0 |
| morex | LOD | 0 | 0 | 2.62263 |
| morex | PAL | 5.6001 | 1.63583 | 0.672748 |
| morex | SEN | 0 | 0.715089 | 1.40679 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +3 | 1e-144 | 418 | 221/314 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.2 @ TAIR |
+3 | 1e-72 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=456 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 1e-157 | 450 | 239/327 (73%) | pacid=32780084 transcript=Bradi2g45880.1 locus=Bradi2g45880 ID=Bradi2g45880.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1114 bp)
>BART1_0-u21354.019 1114 150831_barley_pseudomolecules CAGAGTTTGCAGATGAAGATGTAAATTCTGCAGCACAAGATATCTGTACTGTCAATGATC ATGAGAAAAGCCTGGGCTCAAACCCGGATTGCAGCCTGTTGGATATTTATAATCCTGATG ATGCTTTTCCTTTCTTATTTGATGTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTTT GTGATGAATTTGTACCCATCGATTCATTGACAGACATGAGTGGCATATGCGGAGTATTTC CACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCATGCCCATCACAAGGGG ATATGTGCTTTAATAACTTTGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGG TCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATG ATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGA AGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATAT TCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACA CATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAA AAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGC AGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCT TTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACG TCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAG CAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACA TTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGA TCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTA TAGAATTTTGTACATAAAAACTGTTAGAAATGAA
Protein Sequence (290 aa)
>BART1_0-u21354.019 290 150831_barley_pseudomolecules EFADEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTFC DEFVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFDAACVSKEQGARKV TLVLDLDETLVHSTLEHCDDADFSFPVSFGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIF TASQSVYADQLLDRLDPENTLFSKRFFRESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQ VFQLQVNNGIPIESWYNDPFDEGLSQLIPFLETLAVADDVRPIIAKRFGN