- Transcript BART1_0-u21354.002
- Transcript IDBART1_0-u21354.002
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460556581 | 460556328 | - |
| chr3H | 2 | 460557509 | 460556681 | - |
| chr3H | 3 | 460558032 | 460557695 | - |
| chr3H | 4 | 460558583 | 460558101 | - |
| chr3H | 5 | 460558898 | 460558793 | - |
| chr3H | 6 | 460559814 | 460559714 | - |
| chr3H | 7 | 460560666 | 460560479 | - |
| chr3H | 8 | 460562919 | 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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.182016 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0.160484 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.149356 | 0.14474 | 0 |
| morex | INF2 | 0.254671 | 0 | 0.300412 |
| morex | CAR5 | 0 | 0.175937 | 0.186762 |
| morex | CAR15 | 0.163735 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| 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 | +3 | 0.0 | 578 | 312/448 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 5e-68 | 234 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 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 (2717 bp)
>BART1_0-u21354.002 2717 150831_barley_pseudomolecules CACCCCGAACCAGCATCGCCCTGGCCCCGCGCGTCATCCACCTGAAGAAAAAGCCTCGCG GGTGGCGAGCCGCGGCGCGTACGAAGGCGATCGAGTCGGGGGGCTCGACACGGCCGGCCA CAGCTGTCTCTGGCGGCATGACAAGTGGGCCCGGACCGCGCGCGCGGCCCACCGGCCAGC GAGCCGGTCGAAGACGAGTGGAGACGGGCTATACCAAATCGGAGACCGAGCCCTCATAAT TCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGCGC ACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGAGG CCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTCGAC AGTTTTGGCAGTCTGAACTGCTGATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTG ATGATGACATTTTCGGGAGTGAGTTTGACATCAAATCCATGAAATCGGTGAAAATCTCGC CTTCCCAAGTTGATGAGTTCGAGCAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTC AGGATGAGCCTGAGCCGATAACTCAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTT CCGGTTTGCATGCTGTACTTGGAGGAACATCCGTTGCTCTGCTGAAGGATTTAATATCTG AAACTGTGGTTCCACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGATGGCAAAT CTCAGTCAAATGTAGTGAACACCGGTGATAAAGAGTTTGCAGATGAAGATGTAAATTCTG CAGCACAAGATATCTGTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAACCCGGATT GCAGCCTGTTGGATATTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGATGTTCCAA CTGGTCTCCTGGCTAGCTACAGTACATTTTGTGATGAATTTGTACCCATCGATTCATTGA CAGACATGAGTGGCATATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCA TTGGCAATGAACCATGCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGGAGT GCTTTAGCCATTCTGAGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATGTAC CTAATCTTATTGGTTATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAG GGGCCAGGAAGGTCACTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGG AGCACTGTGATGATGCAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGG TATATGTGAGGAAGAGACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTG ACGTTGTTATATTCACAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTG ATCCAGAGAACACATTGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAA GTGGCTACACAAAAGATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTG ACAACACTCCGCAGGTTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGT ATAATGACCCCTTTGATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTG TTGCTGATGACGTCCGACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCT GAGGTTTTCCAGCAGGTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAAC TTACATGACACATTGACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATG GGTTTCATAGGATCAAGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCT CAAACACTGTTATAGAATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTA AAATTTCTTCTTTGCCACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTGTTTT TTCTGTTTCATGATGTCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCAAGCT AACATATTTGCAAGTTACATTGTGGAACGGAGGGAGCAGAATTGATTTTGTAACACAACT GTCTGATATCTTCTGCTAAGATAAATTATCATGTTTGACTCTTGTCTATTCATACGTAAA TTAGATACCTGGCACGTGGAGATTGTTCTGAATACTTATCTTTGTCTGATGTGGGGATCT AGGCTATCCAGCTACTACAAAGGTGAAATTTCATGTAAAAGTCACGCCTGTCTGCCATAT TGTTCGCCGCAGTTCCTCCAACACGCAGCAATGCAATTGTTAAAATGAGGCAAGAGTCTA GAGGTCTTAGTTGCCACTTGAAGCCATTCTGAACTTGACTCAGAGCCAGGAGCACCAACC ATTATCTAGCGCCTGTGTCTAACAAAACAAGACCATTATTACTCCGATACATATTACTTG GCCGATACATATTACTTGTAGCTTAAATGGATGTATTTAGCACTGAAGTACGTCTAGATA CACATGTTTTATCAATAAGTAATATGGCTCGTACGTCTAGATACACACGTTTCATCAATA AGTAACATGGCTCAGAG
Protein Sequence (445 aa)
>BART1_0-u21354.002 445 150831_barley_pseudomolecules MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD KEFADEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTF CDEFVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEW FNPYMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSF PVSFGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKR FFRESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLS QLIPFLETLAVADDVRPIIAKRFGN