- Transcript BART1_0-u24401.013
- Transcript IDBART1_0-u24401.013
- Gene IDBART1_0-u24401
Barley RTD
Exon Structure of BART1_0-u24401.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 659169939 | 659169833 | + |
| chr3H | 2 | 659171169 | 659170760 | + |
| chr3H | 3 | 659171437 | 659171284 | + |
| chr3H | 4 | 659171629 | 659171536 | + |
| chr3H | 5 | 659172666 | 659172481 | + |
| chr3H | 6 | 659172823 | 659172776 | + |
| chr3H | 7 | 659173083 | 659172898 | + |
| chr3H | 8 | 659173257 | 659173171 | + |
| chr3H | 9 | 659173653 | 659173567 | + |
| chr3H | 10 | 659174409 | 659173736 | + |
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 | 0.793098 | 4.87352 | 5.05754 |
| morex | ETI | 2.92594 | 4.80136 | 6.51093 |
| morex | LEA | 2.59349 | 3.75994 | 5.59203 |
| morex | EPI | 4.14133 | 6.24728 | 4.39201 |
| morex | ROO | 2.65883 | 0.933883 | 3.78177 |
| morex | ROO2 | 3.69646 | 3.64584 | 2.28201 |
| morex | NOD | 4.59173 | 4.77366 | 7.15481 |
| morex | RAC | 4.40512 | 3.23086 | 3.78331 |
| morex | INF1 | 10.0939 | 6.10681 | 4.93875 |
| morex | INF2 | 8.13579 | 13.753 | 5.90205 |
| morex | CAR5 | 7.74093 | 8.94006 | 10.8085 |
| morex | CAR15 | 1.49258 | 3.5516 | 9.50892 |
| morex | LEM | 5.15697 | 6.46319 | 4.04053 |
| morex | LOD | 8.94683 | 5.13487 | 3.49179 |
| morex | PAL | 5.38727 | 3.32098 | 4.47325 |
| morex | SEN | 5.14943 | 3.51634 | 2.91153 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g70920.2 | +1 | 1e-135 | 400 | 207/301 (69%) | protein|cullin-1, putative, expressed |
| TAIR PP10 | AT4G02570 @ ARAPORT AT4G02570.4 @ TAIR |
+1 | 4e-35 | 142 | 107/320 (33%) | Symbols: CUL1 | cullin 1 | chr4:1129315-1133435 FORWARD LENGTH=738 |
| BRACH PP3 | Bradi2g60057.3.p | +1 | 6e-160 | 463 | 236/304 (78%) | pacid=32775524 transcript=Bradi2g60057.3 locus=Bradi2g60057 ID=Bradi2g60057.3.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 (2033 bp)
>BART1_0-u24401.013 2033 150831_barley_pseudomolecules GCTGAAACCCGTCCCCCAATCCGCCGTCGGCTGCCCTCCTCACCCCTACCGCGAACGGCA GGCGAGACGGCGGCGGCGGCGAGCACCGCCCGATCCTCTCCCCCCTCGCTTTCTATTGAA AACTGAGTATTGCTCAGTTGGTGGGGGCGCTCGAGCATCACCCCGCCAAACTGCCCACCA AGGTTTGACTCCCATTACCAGGATTTATTCGACGTGGTGCCTGGTGTCTTGGACGTTCTT GTACAAACAATGCTGCCAAGTGCTAGTGCCTGGTTGGCCGAGTCTTCTTTTTTACAGATA TAAGTAGGCTTTCTGTTTTGAATCATATGTTCATAGTTCAATATGGCAGACTTGAATGTT GAAATGCATAAGAAGTTGTGAATCTACTTGCAGAGGTTGCGGCCTGGTTTCCTAAATGGG TGCATGAAGGTTTCTGGAACATTTGTGTACTTGTGAAATTAGGGCTATCGTTTGTAGGGT ATTGTGGGCCTTTGTTGAGTTTGTGTATCCAACTAAGTTCACTGTAGGAGCAAAGCAGTA AAAATGAATGCGCACCTCAGCTTTGAGGATGGCTGGAAGGTCCTGGAACAGGGCATTTTG ACATGCTCAAAGATTTTGGAGGGTTCCACTGGTACAAGGCCTACTGTTGCTGAGTACATG AATTGCTATGACTGTGCTTATAGAATGGCTGTGCAGACAACCAGCTATTGTGAAGAGATG TACAATGGTTACAGGACTACACTTGCAGAATCTGTTCGTGCACTGGTTTTACCCCATCTG ATGCACAAGAGAGATGACTACCTTTTGAGACAGCTTGAGAAAATGTGGTCGAACTATTGT ATCATGGTTAAATGTATATCTGGCTTCTTCAACTATTTGGACCGTTGCTTTGTTGAGCAA AGAAAGCTACCTTGTCTTGAAGACACTGCTGCCACTTCTTTTTTCTCGACAGTCTTTTCG TTCTTTAGCCATGAAGTATCAGAGGCTCTACTGACTTTGATTCGCCAAGAGCGTGATGGA AGCAATGTTGATATGGACATCTTGATGGTCATTATGCGTGGCATATGTCGCTCTGAAGTC AAATCCTTCATGAGAAATGCTGTTGTCCAAGATACATATGCTTACTACTCCAGGAAAAGT TCTGAATGGATAGTTCAGTACCCTCTACAAGATTACCTTGCCATGGTCCAGGATTGTATG GAGAAGGAAACCATGAGATTGATGAGCTATCTGCATATTCCTGAGGGAGATAGCACAGAA CTCTGTTTGAAGGTTGTTAGTGCTCCATTGATGCAAATGTATGACAGCTATGCAAGAGAG AAACAGATTGGTGGCCAACTTTTGCTTCAAACATACAAGACTGTGGAGGATGATCTGCTG GCCAGATGCAATCGCTTGACAATTGACAGCGGCGTGGACAACAGTTCTGGCAGTTACATG GAGTAGAAAGGAAATGCACTTCAGCTAACATTCATCTATAACCAAGATTACATACAGGAA GGGGTTCTAGAACATGGCCTACATCTGGGGGAATTTTTTGTGCGGCTGCTCGGTTTTTGG TACCGTGGATTTTGTTGGCAAGGTTCGCCTAGATTAAACGCTGTACTGAATGCGAAGGGG ATACCTCTTAAGTGCTGCCTCCTACCCCATTATGGTCAACAGCATCTGAAATGTACAGGA TGGCTGGTCAATTTATGCCAATGGCAGTTTATTTTGATCGTTGTCTAGCGAACATTAGGC CGGTCAGCACCTAGCACTCTTAGTGGCTGGACATGGAGTATGTGGTCATGACACCAGAAT GATCGGTGCATTGCCTGTGTGCCTTTTGCTTGCGAGCTTCTGATGCTGTCTATGGTCTAA GCTTATCTATGACTTGATGTTACTTTCCTGTGTTTGTGTGCTTGCCTAAATTGCTAAACT GTAGGTTGGATGTGTTTTCGCTTATTTCATGTCAAGTTTGCTGTTATGGTTGCAGTTCTT TCCTTGGTGGGCCATAATTGTTTGCAATTTTAGATTAGATTATAAACCCTGGT
Protein Sequence (300 aa)
>BART1_0-u24401.013 300 150831_barley_pseudomolecules MNAHLSFEDGWKVLEQGILTCSKILEGSTGTRPTVAEYMNCYDCAYRMAVQTTSYCEEMY NGYRTTLAESVRALVLPHLMHKRDDYLLRQLEKMWSNYCIMVKCISGFFNYLDRCFVEQR KLPCLEDTAATSFFSTVFSFFSHEVSEALLTLIRQERDGSNVDMDILMVIMRGICRSEVK SFMRNAVVQDTYAYYSRKSSEWIVQYPLQDYLAMVQDCMEKETMRLMSYLHIPEGDSTEL CLKVVSAPLMQMYDSYAREKQIGGQLLLQTYKTVEDDLLARCNRLTIDSGVDNSSGSYME