- Transcript BART1_0-u10056.003
- Transcript IDBART1_0-u10056.003
- Gene IDBART1_0-u10056
Barley RTD
Exon Structure of BART1_0-u10056.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 196197765 | 196196758 | - |
| chr2H | 2 | 196198594 | 196198527 | - |
| chr2H | 3 | 196200943 | 196200894 | - |
| chr2H | 4 | 196201575 | 196201168 | - |
| chr2H | 5 | 196202024 | 196201954 | - |
| chr2H | 6 | 196203345 | 196203171 | - |
| chr2H | 7 | 196204297 | 196204201 | - |
| chr2H | 8 | 196205297 | 196204438 | - |
| chr2H | 9 | 196205912 | 196205811 | - |
| chr2H | 10 | 196206098 | 196206017 | - |
| chr2H | 11 | 196206599 | 196206413 | - |
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 | 0.000000615973 | 0.000000894601 |
| morex | ETI | 0.0000000970293 | 0.0000000369066 | 0.000000018831 |
| morex | LEA | 0.0000000655247 | 0.0000000259085 | 0.0000000399275 |
| morex | EPI | 0.00000010834 | 0.00000135181 | 0.0000000991005 |
| morex | ROO | 0 | 0.0000000433653 | 0.00000470889 |
| morex | ROO2 | 0.00000237191 | 0.000000693172 | 0.000000688236 |
| morex | NOD | 0 | 0.00000108499 | 0.0000000190188 |
| morex | RAC | 0.00000153537 | 0.000000692523 | 0.00000213114 |
| morex | INF1 | 0.000000159558 | 0.00000000694576 | 0.00000022281 |
| morex | INF2 | 0.000000232693 | 0.000000424015 | 0.0000000872857 |
| morex | CAR5 | 0.0000000358222 | 0.000000000833521 | 0.000000432797 |
| morex | CAR15 | 0.00000000627777 | 0.0000000488232 | 0 |
| morex | LEM | 0.0000000998146 | 0.000000244632 | 0.000000316533 |
| morex | LOD | 0.000000773583 | 0.000000519378 | 0.00000114098 |
| morex | PAL | 0.000000724608 | 0.000000268519 | 0.0000000177375 |
| morex | SEN | 0.00000000816074 | 0.000000121414 | 0.00000162428 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g37610.1 | +3 | 0.0 | 1169 | 623/900 (69%) | protein|B3 DNA binding domain containing protein, putative, expressed |
| TAIR PP10 | AT2G30470 @ ARAPORT AT2G30470.1 @ TAIR |
+3 | 2e-101 | 337 | 206/465 (44%) | Symbols: HSI2, VAL1 | high-level expression of sugar-inducible gene 2 | chr2:12980904-12984724 REVERSE LENGTH=790 |
| BRACH PP3 | Bradi1g24720.2.p | +3 | 0.0 | 1261 | 661/909 (73%) | pacid=32795969 transcript=Bradi1g24720.2 locus=Bradi1g24720 ID=Bradi1g24720.2.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 (3108 bp)
>BART1_0-u10056.003 3108 150831_barley_pseudomolecules NNNCGTCCAAGCAGCCGCAGCAGCAGCACCAACAGCAGCAGCAGCAGGGCCCTTCGCCCG CCTCGCTCCAGCAGCGGCCCAGGATCTGCTTCAACGCGCACTGCAAGGACCCCAAATCCG AGGGCGCGCGCCACCGCGGCTGGCGCCTCCGCTCCGGCGACTACGCCGAGCTCTGCGACC GATGCTATGGTTCGTTCGAGCATGGGACCTTCTGCGAGACGTTCCACTCGGAGGTGGCCG GATGGAGGAAATGCGAAGCGTGCGGGAAGAGGCTACATTGTGGGTGCATCGTCTCCGTCC ATGCGTATGCGCTGCTCGACGCCGGCGGAGTTGACTGCATCCTATGTGCTCGCAAGTCGT ATGTGGCAATGGCACCAAGTCAGATGTGGTCAACTCCTACTGTGCATATGCCTCAAAATG TTGCTGACAGAAAGGACAGTTATGTAAAGAGTTGGAGACCTCCTGCGGGCCAGATTTCAA GTCAGTGGCGACAGAATCACCAGCTGTGGAACATGTCCAGTATACAGACGGACTTGCAGC AACGTCTAGCTTATGAGTTTGATAGGCCAAGTGGCAGTGAAAAATTACCTCCAGGGCGCA CTTTTATTCATGCCCAGGAAAAGAAATCCGATGACATGCATGACAGACCAACGACACCTG CCGGCATGGGCCAGATTATAAGGGACAGATATGCCAATGGGCTCGGACAGCAAACAAACA TGGATCCGACACACTCCTCTACGCCCTACCAGAGAGAAGGACCAAATCAAAATAGCCTTC ATGATCCTAGTCACCATGTAGGAGAAAGTGACCCTTTGTCTTCAAGGAAAGGGATAGTTT CAGATGGTGGTTCTACTGCATCTACTGGCTTTAAGCTTGATCCACATCATCCATCCATTC TAAAGGATGATGCGGCATCAACCCTGCCGACAATGGGTGGCTACACTATCACTAATTATC CACCGGTACCTGGACGAAGCGACCATCTCAGAATCATACCTAATAATCCGCAACAACCAC CCACCACGGTGCCCGTCTCAGTAGTGCAGAAACAGTTCTATTCCCATAGTGTCATTGAGC CCGACTACCAAGCGCAATTCCGTAATGGAAAGCCCAGAATGGAGTCCAGAATGGATGCAA AGGCGAGATCTCAATTACTTCCCCGCTACTGGCCTAGAATAACAGATAAAGAGCTACAGC ACTTATCGGGAGAGTATCCAAAAAACTCTACTTCGAATTCTGTTATTACTCCTTTGTTCG AGAAAATGTTAAGTGCCAGTGATGCTGGTCGGATTGGTCGTTTGGTGTTGCCAAAGAAAT GCGCCGAGGCATACTTCCCCCCAATCTCTCAGCCAGAAGGACTTCCCTTAAAAGTTCAGG ATGCCAGTGGTAAGGAATGGGTGTTCCAGTTCCGTTTCTGGCCCAATAATAACAGCAGGA TGTATGTATTGGAGGGTGTCACACCTTGCATTCAGTCGATGCACTTACAAGCGGGCGATA CAGTAAGTTTCAGCCGAATAGATCCAGAAGGGAAGCTGGTCATGGGATTCAGAAAGACAA AGACTCAAGAACAGATATTCCGCCAGGAAGAACCAACAAAGCCTGCAAATGCTGCCCCAA ATCTTCCAGATGTGAATGTTAATGTCACCGCTCCAGATTCTAGTCCAAATTCTGCGTTGG CGCGGCCAAATAAAGTCAACACAGAGAACAAAGATACTAGCCCTGTGGAACAAGCAGCTG CCTGTAAAATGGAGAAAACTGGAGTAGCACAAAAGGAAGGGCAGGGAACTGTTCGCTCAT CCCCTGGACCTGTCAAGAGAAAAGCAACATCTCTTGGTTCGAAGATTAAACGGTTCCGGA TTGATAACGAGGAATCTATGGAATTGAAGATAACATGGGAGGAGGCTCAAGAATTGCTTC GACCTCCTCTGAAGGCCCCATCGGTTGTTATTGTTGATGGCCATGAGTTTGAGGAATATG AGGAGCCACCAGTACTTGGGAGGAAGACATATTTTGTTACTGACCAATCAGGGACGACTT GTGTCTCTCCACAAGAAGCAAGCATGGAGCAACTTGCAGAGTTGATTCCTATAAAAGCAG GTGCTGCAAAAAAGGCTAAACTGAAGATGGAAACTGACAGTATTGATGTTTCGGATGGGC TGGACACTCTGGCAAACCTTGCTATTCTTGGTGAGGGTGAATCTCTCCCTTCCCAGCCAA CTACAAAGCACCCCCGCCATCGCCCTGGCTGCTCGTGCATTGTGTGCATTCAGCCTCCTA GTGGGAAGGGCCCAAAGCACAAGCAGACGTGCACCTGCAATGTATGTATGACGGTGCGCC GTCGTTTTAGGACACTGATGCTTCGGCGTGAGAAGCGTGCGTCTGAGAAAGAATCGGAAG AGCCGCCTCGCAAGAAAGAGCAAGGCCAGTCGAGCGAGTCGATTCCACAAGATGTGCTGC CGGCTAGCACCAGTCCTACTAGCACTCCCCAAAACGTGAACGGAAATGGTGAAGATGCGG AAGAAACCGTGGAGCATAGCATGGTATCCTCTCCTATGAAGAACCAGATTGACCTGAACA TTCAGCCTGAACGGGAAGACGAGCAGTCACCAAAATCAGATGCGGTCGGTGCAATGAGAC TTCCCCGAGAGAACGCAGCCTAGTGCGGCTCACCGTAGTGGTGATAGATAACACCAGATT GAAAACTGTCTATACCAATGGAGATATGCGGCGCCTGGAGTTGTAGTGTAGGTGTTATTA CTTTTTCCATACAAAAGGATCTAGTTTCCTTCCTGTTGCGGGGGACATATTTCCCAGTGT TGATGCTATATCGTGTATACCATAGATCAGTCGGTTGGTGCTGTAGGCAGGCCCTGTTGT AGGTGTTGCCTACCCTGTATGTATGTGTATTGTAAGGGCAGCGCTCTTCGGCACCATGTA AGCGGCATGCATAATTTATTCATGTATCGGCTCAACCATCCAAACTAGTAATGCTTCTAA TGTCAAAACACAGATAAGGTGTCCTTGTTCCGGTTGGCAAAGAAGCGTTATCCTAGATCG TCCCCTGATGGGTGCTATTTTTTCTCATATTTAGCTACTCGTCGATCG
Protein Sequence (886 aa)
>BART1_0-u10056.003 886 150831_barley_pseudomolecules XSKQPQQQHQQQQQQGPSPASLQQRPRICFNAHCKDPKSEGARHRGWRLRSGDYAELCDR CYGSFEHGTFCETFHSEVAGWRKCEACGKRLHCGCIVSVHAYALLDAGGVDCILCARKSY VAMAPSQMWSTPTVHMPQNVADRKDSYVKSWRPPAGQISSQWRQNHQLWNMSSIQTDLQQ RLAYEFDRPSGSEKLPPGRTFIHAQEKKSDDMHDRPTTPAGMGQIIRDRYANGLGQQTNM DPTHSSTPYQREGPNQNSLHDPSHHVGESDPLSSRKGIVSDGGSTASTGFKLDPHHPSIL KDDAASTLPTMGGYTITNYPPVPGRSDHLRIIPNNPQQPPTTVPVSVVQKQFYSHSVIEP DYQAQFRNGKPRMESRMDAKARSQLLPRYWPRITDKELQHLSGEYPKNSTSNSVITPLFE KMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDASGKEWVFQFRFWPNNNSRM YVLEGVTPCIQSMHLQAGDTVSFSRIDPEGKLVMGFRKTKTQEQIFRQEEPTKPANAAPN LPDVNVNVTAPDSSPNSALARPNKVNTENKDTSPVEQAAACKMEKTGVAQKEGQGTVRSS PGPVKRKATSLGSKIKRFRIDNEESMELKITWEEAQELLRPPLKAPSVVIVDGHEFEEYE EPPVLGRKTYFVTDQSGTTCVSPQEASMEQLAELIPIKAGAAKKAKLKMETDSIDVSDGL DTLANLAILGEGESLPSQPTTKHPRHRPGCSCIVCIQPPSGKGPKHKQTCTCNVCMTVRR RFRTLMLRREKRASEKESEEPPRKKEQGQSSESIPQDVLPASTSPTSTPQNVNGNGEDAE ETVEHSMVSSPMKNQIDLNIQPEREDEQSPKSDAVGAMRLPRENAA