- Transcript BART1_0-u21354.011
- Transcript IDBART1_0-u21354.011
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460556853 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558574 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560666 | 460560479 | - |
| chr3H | 7 | 460561746 | 460561660 | - |
| chr3H | 8 | 460562692 | 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 | 4.6903 | 0.000000000753453 | 2.28518 |
| morex | ETI | 5.61892 | 6.26726 | 6.56628 |
| morex | LEA | 1.81477 | 3.21251 | 7.27572 |
| morex | EPI | 3.05023 | 4.38511 | 6.99925 |
| morex | ROO | 3.20121 | 2.70281 | 0.0000248329 |
| morex | ROO2 | 5.6497 | 6.69605 | 8.90156 |
| morex | NOD | 4.67822 | 8.03066 | 5.01054 |
| morex | RAC | 3.15994 | 3.2531 | 2.85278 |
| morex | INF1 | 5.06218 | 4.97199 | 2.57694 |
| morex | INF2 | 2.71577 | 2.97138 | 4.44827 |
| morex | CAR5 | 0.70022 | 2.09125 | 0 |
| morex | CAR15 | 4.17164 | 5.42797 | 3.16597 |
| morex | LEM | 8.11006 | 5.44863 | 2.94099 |
| morex | LOD | 6.95662 | 4.54453 | 5.17985 |
| morex | PAL | 4.03404 | 4.46971 | 2.69517 |
| morex | SEN | 5.34028 | 7.50599 | 6.42658 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g47540.1 | +1 | 0.0 | 583 | 312/445 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+1 | 3e-69 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +1 | 0.0 | 647 | 338/449 (75%) | 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 (2142 bp)
>BART1_0-u21354.011 2142 150831_barley_pseudomolecules GAGCCCTCATAATTCTCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTG CCTGCCTGCGCGCACCGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCG CCTCCGGGAGAGGCCGAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCA GCATCGCCTCGATCCGTGTTGTACTCCTTGACCGACTATGGCTTTTATCAATTCAAAGTC AGATTCATTCCAAGCCTTCCGTCTAAAACATAACTTAGACAGTTTTGGCAGTCTGAACTG CTGATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATGACATTTTCGGGAGT GAGTTTGACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCCAAGTTGATGAGTTC GAGCAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATGAGCCTGAGCCGATA ACTCAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTTTGCATGCTGTACTT GGAGGAACATCCGTTGCTCTGCTGAAGGATTTAATATCTGAAACTGTGGTTCCACCAAAT TTGGAACCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGTCAAATGTAGTGAAC ACCGGTGATAAAGATGAAGATGTAAATTCTGCAGCACAAGATATCTGTACTGTCAATGAT CATGAGAAAAGCCTGGGCTCAAACCCGGATTGCAGCCTGTTGGATATTTATAATCCTGAT GATGCTTTTCCTTTCTTATTTGATGTTCCAACTGGTCTCCTGGCTAGCTACAGTACATTT TGTGATGAATTTGTACCCATCGATTCATTGACAGACATGAGTGGCATATGCGGAGTATTT CCACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCATGCCCATCACAAGGG GATATGTGCTTTAATAACTTTGGTGGGGAGTGCTTTAGCCATTCTGAGGTTTTAGAGTGG TTTAATCCATATATGGATGAGTCTGATGTACCTAATCTTATTGGTTATACCGAGTTGAGC TCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGGTCACTCTTGTGCTTGAT TTGGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATGATGCAGATTTTTCTTTT CCAGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGAAGAGACCACATTTGCAT ATGTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATATTCACAGCCAGCCAAAGT GTTTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACACATTGTTCTCGAAGCGT TTTTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAAAAGATCTGACTGTTATT GGAGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGCAGGTTTTCCAGTTGCAA GTGAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCTTTGATGAGGGATTATCT CAGCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACGTCCGACCCATAATTGCC AAGAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAGCAGGTGTTAGGAAGAGT TTGTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACATTGACCGAGCTAGTTGA GACTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGATCAAGAATTTTGGTGGC AGAGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTATAGAATTTTGTACATAA AAACTGTTAGAAATGAAAGCGAAACTCTCTAAAATTTCTTCTTTGCCACATTGTCATTGT CTATGTTCAGCTGTCTACTATTCAGTGTTTTTTCTGTTTCATGATGTCAACTACTCCCTC TGTCCTACAATGTAAAACGTTTTTGCAAGCTAACATATTTGCAAGTTACATTGTGGAACG GAGGGAGCAGAATTGATTTTGTAACACAACTGTCTGATATCTTCTGCTAAGATAAATTAT CATGTTTGACTCTTGTCTATTCATACGTAAATTAGATACCTG
Protein Sequence (442 aa)
>BART1_0-u21354.011 442 150831_barley_pseudomolecules MPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDEPEPITQL AVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQSNVVNTGD KDEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLASYSTFCDE FVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSEVLEWFNP YMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDADFSFPVS FGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTLFSKRFFR ESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFDEGLSQLI PFLETLAVADDVRPIIAKRFGN