- Transcript BART1_0-u21354.014
- Transcript IDBART1_0-u21354.014
- Gene IDBART1_0-u21354
Barley RTD
Exon Structure of BART1_0-u21354.014
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 460557509 | 460556940 | - |
| chr3H | 2 | 460558032 | 460557695 | - |
| chr3H | 3 | 460558574 | 460558101 | - |
| chr3H | 4 | 460558898 | 460558793 | - |
| chr3H | 5 | 460559814 | 460559714 | - |
| chr3H | 6 | 460560662 | 460560479 | - |
| chr3H | 7 | 460562677 | 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 | 0.0000017721 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 1.53985 | 0.156319 | 0 |
| morex | EPI | 0 | 0 | 0.22795 |
| morex | ROO | 0 | 0 | 0.0000103251 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0.000845123 |
| morex | LEM | 0 | 0.00000001331 | 0 |
| morex | LOD | 0.00000000100705 | 0 | 1.79284 |
| 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 | 583 | 312/445 (70%) | protein|NLI interacting factor-like phosphatase, putative, expressed |
| TAIR PP10 | AT5G46410 @ ARAPORT AT5G46410.1 @ TAIR |
+3 | 1e-69 | 233 | 106/159 (67%) | Symbols: SSP4 | SCP1-like small phosphatase 4 | chr5:18826007-18828156 FORWARD LENGTH=453 |
| BRACH PP3 | Bradi2g45880.1.p | +3 | 0.0 | 648 | 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 (1949 bp)
>BART1_0-u21354.014 1949 150831_barley_pseudomolecules TCCTCTCCCCTCTTGTGATTCCGGTGCGTCTTCCCCTCCTCTCTGCCTGCCTGCGCGCAC CGGTCTCCCCCCCCCCCCCTCCCTCTCTTCCTCCGTCCGCCTCCGCCTCCGGGAGAGGCC GAGAGAGAGGGAGAGAGGGAGGACGCGCCGGAGCTACCCGCGCCAGCATCGCCTCGTTTT GGCAGTCTGAACTGCTGATCAAGATGCCAGCACTGAGAATGAAGAGGAAGTTTGATGATG ACATTTTCGGGAGTGAGTTTGACATCAAATCCATGAAATCGGTGAAAATCTCGCCTTCCC AAGTTGATGAGTTCGAGCAGGCATTTGTGTTAAACTCGTCTTACAAGGACCCTCAGGATG AGCCTGAGCCGATAACTCAACTAGCTGTCCAGGATATTAGGGTTACAGAATTTTCCGGTT TGCATGCTGTACTTGGAGGAACATCCGTTGCTCTGCTGAAGGATTTAATATCTGAAACTG TGGTTCCACCAAATTTGGAACCTGATTCTTTATCTAATAATGATGATGGCAAATCTCAGT CAAATGTAGTGAACACCGGTGATAAAGATGAAGATGTAAATTCTGCAGCACAAGATATCT GTACTGTCAATGATCATGAGAAAAGCCTGGGCTCAAACCCGGATTGCAGCCTGTTGGATA TTTATAATCCTGATGATGCTTTTCCTTTCTTATTTGATGTTCCAACTGGTCTCCTGGCTA GCTACAGTACATTTTGTGATGAATTTGTACCCATCGATTCATTGACAGACATGAGTGGCA TATGCGGAGTATTTCCACTTAATGAGAGCACCGTGGAAGGTTGCATTGGCAATGAACCAT GCCCATCACAAGGGGATATGTGCTTTAATAACTTTGGTGGGGAGTGCTTTAGCCATTCTG AGGTTTTAGAGTGGTTTAATCCATATATGGATGAGTCTGATGTACCTAATCTTATTGGTT ATACCGAGTTGAGCTCAGATGCTGCTTGTGTATCTAAAGAGCAAGGGGCCAGGAAGGTCA CTCTTGTGCTTGATTTGGATGAAACCCTTGTTCATTCAACTCTGGAGCACTGTGATGATG CAGATTTTTCTTTTCCAGTGTCCTTTGGTCTGAAAGAACATGTGGTATATGTGAGGAAGA GACCACATTTGCATATGTTCCTCCAGAAGATGGCTGAGATGTTTGACGTTGTTATATTCA CAGCCAGCCAAAGTGTTTATGCAGACCAGCTGCTTGACAGGCTTGATCCAGAGAACACAT TGTTCTCGAAGCGTTTTTTCCGCGAGTCATGTGTATTTACGGAAAGTGGCTACACAAAAG ATCTGACTGTTATTGGAGTTGACCTTGCAAAGGTTGCCATAATTGACAACACTCCGCAGG TTTTCCAGTTGCAAGTGAATAATGGTATACCCATAGAGAGCTGGTATAATGACCCCTTTG ATGAGGGATTATCTCAGCTGATTCCATTCCTGGAGACACTTGCTGTTGCTGATGACGTCC GACCCATAATTGCCAAGAGGTTTGGCAACTAAAAGGATAATGGCTGAGGTTTTCCAGCAG GTGTTAGGAAGAGTTTGTTGGTTACTCACATAGAGGGACAAGAACTTACATGACACATTG ACCGAGCTAGTTGAGACTTGCCTTTTTCTTAATTTTATTTACATGGGTTTCATAGGATCA AGAATTTTGGTGGCAGAGCTATTTCTCGTGAATTGTAAATATCCTCAAACACTGTTATAG AATTTTGTACATAAAAACTGTTAGAAATGAAAGCGAAACTCTCTAAAATTTCTTCTTTGC CACATTGTCATTGTCTATGTTCAGCTGTCTACTATTCAGTGTTTTTTCTGTTTCATGATG TCAACTACTCCCTCTGTCCTACAATGTAAAACGTTTTTGCAAGCTAACATATTTGCAAGT TACATTGTGGAACGGAGGGAGCAGAATTG
Protein Sequence (509 aa)
>BART1_0-u21354.014 509 150831_barley_pseudomolecules LSPLVIPVRLPLLSACLRAPVSPPPPPSLPPSASASGRGRERGREGGRAGATRASIASFW QSELLIKMPALRMKRKFDDDIFGSEFDIKSMKSVKISPSQVDEFEQAFVLNSSYKDPQDE PEPITQLAVQDIRVTEFSGLHAVLGGTSVALLKDLISETVVPPNLEPDSLSNNDDGKSQS NVVNTGDKDEDVNSAAQDICTVNDHEKSLGSNPDCSLLDIYNPDDAFPFLFDVPTGLLAS YSTFCDEFVPIDSLTDMSGICGVFPLNESTVEGCIGNEPCPSQGDMCFNNFGGECFSHSE VLEWFNPYMDESDVPNLIGYTELSSDAACVSKEQGARKVTLVLDLDETLVHSTLEHCDDA DFSFPVSFGLKEHVVYVRKRPHLHMFLQKMAEMFDVVIFTASQSVYADQLLDRLDPENTL FSKRFFRESCVFTESGYTKDLTVIGVDLAKVAIIDNTPQVFQLQVNNGIPIESWYNDPFD EGLSQLIPFLETLAVADDVRPIIAKRFGN