- Transcript BART1_0-u21354.006
- Transcript IDBART1_0-u21354.006
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460556339 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558583 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560662 | 460560479 | - |
| chr3H | 7 | 460562691 | 460562502 | - |
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 | 0.286737 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0.00000130684 | 0 |
| morex | ROO | 0 | 0 | 0.00000000754245 |
| morex | ROO2 | 0 | 0.0000212788 | 0 |
| morex | NOD | 0 | 0 | 0.299417 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.10931 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0.915258 | 0 | 0 |
| morex | CAR15 | 0 | 0.620138 | 0 |
| morex | LEM | 0 | 0.382458 | 0 |
| morex | LOD | 0 | 0.102707 | 0 |
| morex | PAL | 0 | 0.202393 | 0.185898 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +2 | 0.0 | 579 | 312/448 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+2 | 3e-68 | 234 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +2 | 0.0 | 657 | 340/449 (76%) | pacid=32780084 transcript=Bradi2g45880.1 locus=Bradi2g45880 ID=Bradi2g45880.1.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 (2573 bp)
>BART1_0-u21354.006 2573 150831_barley_pseudomolecules AGCCCTCATAATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGC CTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGC CTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAG CATCGCCTCGTTTTGGCAGTCTGAACTGCTGATCAAGATGCCAGCACTGAGAATGAAGAG GAAGTTTGATGATGACATTTTCGGGAGTGAGTTTGACATCAAATCCATGAAATCGGTGAA AATCTCGCCTTCCCAAGTTGATGAGTTCGAGCAGGCATTTGTGTTAAACTCGTCTTACAA GGACCCTCAGGATGAGCCTGAGCCGATAACTCAACTAGCTGTCCAGGATATTAGGGTTAC AGAATTTTCCGGTTTGCATGCTGTACTTGGAGGAACATCCGTTGCTCTGCTGAAGGATTT AATATCTGAAACTGTGGTTCCACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGA TGGCAAATCTCAGTCAAATGTAGTGAACACCGGTGATAAAGAGTTTGCAGATGAAGATGT AAATTCTGCAGCACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAA CCCGGATTGCAGCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGA TGTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTACCCATCGA TTCATTGACAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGA AGGTTGCATTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGG TGGGGAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTC TGATGTACCTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAA AGAGCAAGGGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTC AACTCTGGAGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGA ACATGTGGTATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGA GATGTTTGACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGA CAGGCTTGATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATT TACGGAAAGTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGC CATAATTGACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGA GAGCTGGTATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGAC ACTTGCTGTTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGA TAATGGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGG ACAAGAACTTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTA TTTACATGGGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTA AATATCCTCAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAA ACTCTCTAAAATTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTC AGTGTTTTTTCTGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTT TGCAAGCTAACATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTA ACACAACTGTCTGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCA TACGTAAATTAGATACCTGGCACGTGGAGATTGTTCTGAATACTTATCTTTGTCTGATGT GGGGATCTAGGCTATCCAGCTACTACAAAGGTGAAATTTCATGTAAAAGTCACGCCTGTC TGCCATATTGTTCGCCGCAGTTCCTCCAACACGCAGCAATGCAATTGTTAAAATGAGGCA AGAGTCTAGAGGTATTTTGTGCAATGTTGTGAACTCGATCTTCTGGCTCAACATCATCTA CAACCAAACATTTCTGACATTCCGATGCTTTTTTCAACTTCTGGTGGAAGGTCTTAGTTG CCACTTGAAGCCATTCTGAACTTGACTCAGAGCCAGGAGCACCAACCATTATCTAGCGCC TGTGTCTAACAAAACAAGACCATTATTACTCCGATACATATTACTTGGCCGATACATATT ACTTGTAGCTTAAATGGATGTATTTAGCACTGAAGTACGTCTAGATACACATGTTTTATC AATAAGTAATATGGCTCGTACGTCTAGATACACACGTTTCATCAATAAGTAAC
Protein Sequence (517 aa)
>BART1_0-u21354.006 517 150831_barley_pseudomolecules ALIILLSPLVIPVRLPLLSACLRAPVSPPPPPSLPPSASASGRGRERGREGGRAGATRAS IASFWQSELLIKMPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYK DPQDEPEPITQLAVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDD GKSQSNVVNTGDKEFADEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFD VPTGLLASYSTFCDEFVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFG GECFSHSEVLEWFNPYMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHS TLEHCDDADFSFPVSFGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLD RLDPENTLFSKRFFRESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIE SWYNDPFDEGLSQLIPFLETLAVADDVRPIIAKRFGN