- Transcript BART1_0-u12609.003
- Transcript IDBART1_0-u12609.003
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560838783 | 560838135 | - |
| chr2H | 2 | 560839280 | 560838862 | - |
| chr2H | 3 | 560840111 | 560839880 | - |
| chr2H | 4 | 560841176 | 560840973 | - |
| chr2H | 5 | 560841423 | 560841263 | - |
| chr2H | 6 | 560841998 | 560841505 | - |
| chr2H | 7 | 560842181 | 560842111 | - |
| chr2H | 8 | 560842352 | 560842277 | - |
| chr2H | 9 | 560844230 | 560844063 | - |
| chr2H | 10 | 560844772 | 560844336 | - |
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 | 0.169913 | 0.139429 | 0 |
| morex | ETI | 0 | 0.403784 | 0 |
| morex | LEA | 0 | 0 | 0.422077 |
| morex | EPI | 0 | 0.212397 | 0 |
| morex | ROO | 0 | 0.102333 | 0 |
| morex | ROO2 | 0.301992 | 0.240651 | 0.121692 |
| morex | NOD | 0 | 0.202024 | 0 |
| morex | RAC | 0.67357 | 0.411391 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0.17418 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0.26326 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.409646 |
| morex | SEN | 0.642519 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g36660.1 | +1 | 0.0 | 928 | 530/659 (80%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT2G18750 @ ARAPORT AT2G18750.3 @ TAIR |
+1 | 0.0 | 599 | 357/663 (54%) | Symbols: | Calmodulin-binding protein | chr2:8125827-8128363 FORWARD LENGTH=622 |
| BRACH PP3 | Bradi3g46060.1.p | +1 | 0.0 | 855 | 487/660 (74%) | pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.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 (2911 bp)
>BART1_0-u12609.003 2911 150831_barley_pseudomolecules CTGTCAGTGACGAGTGCGGGTGAACACGGCAGTGCACATTTGCGTGCACAATCTTCATGG AGAAAAATAATGGCCGGGATAGCCGCCACGGCTCTGAGCACCCTCCGGTCTCCAACCTAC CCACCACACCCACAGACAGGCGGTCCCGGTTGCCGATGCCCCACTTGTCATCCAGGTTAC CTGACTGACGGCGCGCGCGGTTGTTGGCGCCTCGTACGCGAGCCAAAACGAGTAAACAAA GCAAAGGCAAAGGCGGGCGCCACCTCCACCCACGCCACACATAGATCTCTCTCTCTCTCC CTCCATCTCTTGCTTTGCCTCTAGTCGTCGCCCAGTCGCTGCCGCACTGCTCCGGCTCGA GCTCGACGCGGGAAGGAGCAGCCCGGGCCTTCTCCAACCCTCGTGCCGCTATCGTTTGCC AGTTACTAGTTGCTAAGATCTGACCCACGGCGCCGGCAAGGTTGTGGCGCCGCGGAGATG CAGAGGCAGGGGCGCCACATGGAGCGGTCTGGCTCCAAGCGGGCGCTAGACCCTGGCGGC AGTGGCGGAGGCGGCGGCGACGACGAACGTGATCCTAAACGGCCGCGCGTCCCGGCCCTC GCCAGTGTCATTGTAGAAGCTCTCAAGTTGGACAGTTTGCAGAAGCTTTGTTCATCCCTG GAGCCGATTCTCCGAAGAGTTGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTGGGA CCTGCAGCAGCACCTGCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGCCCC AATGGTAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACTGGA GGAAAAGTGGAAGGCGAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAACACT GGACATGTCGTCACTTCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTCGAG GGTGATTTTAATAAAGAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCACATT GTGAAAGAACGTGAAGGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTTAAA GAAGGCGTAGGGACCATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGGAGC AGAAAATTCAGACTTGGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATCAAA GAGGCGAAGACAGAGGCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAACAT TACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGTGCA TTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTTCTT GTTAAAGATCAACAGAAGTTAAGAAGTATCCTTGGTACTGGCATGTCAAATAAGATGTGG GAAAGTCTTGTTGAACATGCAAAAACTTGTGTTCTGAGTGGCAAACATTATATATATTAC TCGAAGGATACAGCAAGTGTTGGTGCAATATTCAATAACATATATGAGTTCACTGGTTTG ATTGCTGATGATCAGTTTATTTCAACGGAAAATCTTACTGAAAACCAGAGGGTGTTTGCG GATACGTTGGTGAAGCAAGCATACGATGATTGGATCAATGTTGTAGAATATGATGGCAAG GGATTGTTGAAATTTAAGCAGAAAAAGAAATCTGTCACAACAAGAAGTGATGTTGCAAAT GTCTCTACAAGCTACACTTCTTATGATTCAGCGCACTCTCAGAAACAATTGGCACGAGGA CATGCCAATATTGAGCGATCTCTCATGAGCAGTACGACTAAAGCAGACGAGACAAGAATT GCATCCAACGGGAATCAAGTAGCAATATATGAAGCCAATCCTCAGGACATTTCACCAAGT ATTACCATGCAATATGGCATGAGTTCATTGATCCCTGAAGGCCAGTTCAATGGCTCTTCC ATCCAAACTCAAGCATCAAGAAGCTCCAACATGCTAGCATTTGGACCTCCACCACAGCAG CCGCATAACTTCGAATTCTCAGCATTTGGTCTGTCCATGCAATCCCCAGCTCCTAATCCT TTTGATGACTGGCCTGGACGGTTGCAGGAGAACCGCGGTGGTGTTGATGACTGTCTGATG GAGGAGATAAGAGGGAGAAGCCATGACATGCTGGAGAATGAAGAAGAGATGCAACATATG CTGCGCATTCTTAGCGGCGGGGCAGCAGCAAACATGAATAATGCTGTTGTTGGGTGGCTT AAGATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAAGA GCTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTTTC TCGTCTTGTATAATTGCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAGTA TGAATGGACTCACGTTGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTGTT GGTGTTCAGAAAAACAAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGTTG GAGATTGGACACTTGAAACAGGCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTGCA TTAAATGGGCAAATGAGTTACTCCCTCCATCACAGTTTATAAGGCGTGCACGTGTATCTA GGTCGTCAATTTGACTTATATAAAATATATTGTTTAACATAAAAATTATATCATTAAAAA TAGAACATCTAAAGTTTTTAATGATATATTTTTTGTAATATATGTCTCTTATTAAGTTGA TCAAATTGACGACCTAGATACACGTGCAGGCCTTATAAACTGAAACGGAGGGAGTACTGT ACATATGAAGAAAGAACCTCTCCGCCTAACT
Protein Sequence (629 aa)
>BART1_0-u12609.003 629 150831_barley_pseudomolecules MQRQGRHMERSGSKRALDPGGSGGGGGDDERDPKRPRVPALASVIVEALKLDSLQKLCSS LEPILRRVVSEEVERALAKLGPAAAPARIEGRTSPKRIEGPNGSNLQLQFRSRLALPLFT GGKVEGEQGASIHVVLLDANTGHVVTSGPQSSAKLDVLVLEGDFNKEKDEDWTEEEFESH IVKEREGKRPLLNGDIHVTLKEGVGTIGELIFTDNSSWIRSRKFRLGMRVSSGFCDGVRI KEAKTEAFTVKDHRGELYKKHYPPALKDDVWRLEKIGKDGAFHGKLNSNGIYTVEHFLQL LVKDQQKLRSILGTGMSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTG LIADDQFISTENLTENQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVA NVSTSYTSYDSAHSQKQLARGHANIERSLMSSTTKADETRIASNGNQVAIYEANPQDISP SITMQYGMSSLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPN PFDDWPGRLQENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNAVVGW LKIKAAMRWGIFVRKKAAERRAQLVELDD