- Transcript BART1_0-u30923.007
- Transcript IDBART1_0-u30923.007
- Gene IDBART1_0-u30923
Barley RTD
Exon Structure of BART1_0-u30923.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 594110003 | 594109261 | - |
| chr4H | 2 | 594110196 | 594110116 | - |
| chr4H | 3 | 594111156 | 594111023 | - |
| chr4H | 4 | 594111612 | 594111468 | - |
| chr4H | 5 | 594112446 | 594112174 | - |
| chr4H | 6 | 594112801 | 594112592 | - |
| chr4H | 7 | 594113869 | 594112873 | - |
| chr4H | 8 | 594115363 | 594115181 | - |
| chr4H | 9 | 594116068 | 594115461 | - |
| chr4H | 10 | 594116642 | 594116575 | - |
| chr4H | 11 | 594116918 | 594116730 | - |
| chr4H | 12 | 594119316 | 594118705 | - |
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 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.519056 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0.104474 |
| 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_Os03g06950.1 | +3 | 1e-175 | 566 | 273/340 (80%) | protein|ubiquitin carboxyl-terminal hydrolase domain containing protein, expressed |
| TAIR PP10 | AT3G47890 @ ARAPORT AT3G47890.1 @ TAIR |
+3 | 4e-140 | 468 | 224/340 (66%) | Symbols: | Ubiquitin carboxyl-terminal hydrolase-related protein | chr3:17667172-17673530 REVERSE LENGTH=1568 |
| BRACH PP3 | Bradi1g74000.4.p | +3 | 0.0 | 669 | 310/339 (91%) | pacid=32803973 transcript=Bradi1g74000.4 locus=Bradi1g74000 ID=Bradi1g74000.4.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 (4243 bp)
>BART1_0-u30923.007 4243 150831_barley_pseudomolecules GTCGACCTCGCGCCCGACTCCCTCGAGCTCGCCCACTTCCGCGCCCTGCTCCTCTACGAC GCCGCCACCGACAACCGCGCCTACGAGGAGGTCATCGCCGAGTGCGAGCGCGGGCTCAGG ATCGACGAGCCATCCGACCCGGAGCCCCACTCGCTCCGGCTCCCCGCCCCCGACCCCGAC CAGCTCCGCGCCGAGCTCCGCAACCTCGTCCAGAAGGCCAATCTCGCATCCATTTCCACC TGGGTCAAGACCCTCGGCGGCTCCGATGACAAGCTCGGCTTCTTCCGCCTGGCCGATGAC CCCCTGGAGCTCCAGCTCCTGCCCGCGGCCCCAGCCCCGCGCCGCCCTAACGAGATCAAG AAGGCCACCAAGACCGTCGAGGAGCGCCGCAAGGAGATCGAGGTGCAGGTCGCCGCTCTC AGGCTGCTGGAGCAGCAGCAGCAGCAGCACAATGCCGCCGCGGCTCTCTCCTCCTCACCA CCACAGTCACAGCAGGGAGATGAGCCCCCCTCCTCATCATCTCAGTCCACCGCCTCCGGC CATCGCGCTGATCGGAGAAAGGGAGGGTCCAAAAGGGCAACAGTCTCATCGGCATCCGAC CAAAGGAATCAGAACCATTTGGAAGAGCTCGCGGACAAGGATGCTAGAGAGAGATCTGAT GCAGCAAGAGACGCCTTTCTAGCTGAACTTGCTTTAGATGCTGAGAAGAGTGCAAACAAA GGGGTTGATAAAAAACTTACCCATGAGAAATCAAAGGACAAGAAGAGAATGAAGGATTCT AGGAGATCCAAGGATATCAAGGATTTGAGCTGGAGTGATCAATACATTGTTCGCCAGGAC AGTGCAGATGAGGAAACATCAGAGCAAGCTCAGACTCTTGTTGATTGTGATGACTTTGAC GGCAAACTTTCACTAAGTGATGAGTACTCAAATGAGCAAGAGGAAGAGCTTAGGCATAGA GTACAACTTGAAGCAGAGGAAAGAAAACTGGAGGAAACATTGGAGTACCAAAGGCGGATA GAGGAGGAGGCAAAGCAGAAGCATCTTGCCGAACAGTCCAGAAGTACTTCGTCAGCTCCT GATATTGGGACAAATGGTTATTCAACTGATGTAAATTCAAGCGTGCATCAGGATAACCAT CAAAGTGCACCCAATAATGTCTCACCTGCTTATCTTGAAGGGATAAAGTTTGGTGATTTT CGCTTTCCTAAAGTTCCCTCGCGGGAAAAGAATTCTAGTTCCGATTTTTGTGGTGTGGAC CTGCCACAAAAGACTGAGAACAATCGCAGGGAGAAACCAAATGGACTGTGCTCTCCTGGA GCACATGCATTAACCAGCAACAATGTGGACTTCACTAAGCCAGCACTGAAAATGAACGGA GTTGGGAAATATGCTCAGAATACAAAACTTGCAACTAATCCTCTCATCCAAAGGTCTAAG AGCAGCACTAGCCAACCACATAAGAAATACATCCAAGGTGCTGTTCATAATGGTGATGAT AGTGCATCTAGTCGACAAAATGGTACAGCAGCTCTAAGATGGAGCAGTTCTGGCAAAGCA GCTGACTATTCTAGTAACAGTTATCAGGATGGAAGACAAAATGAGTTGCCACCTGTGCTT TCTTCGGATGATCCATGGAATGCCAACAAAGCTGAGAAAGCTGACAAGGGGGCAATCTCA CCTGCAATTGTATGTATCGAGGATGATTCTGACAAAAGGTTCGAAGAAGACCTCAGAAAA GCAGTGCACCAAAGCCTCGGTACATCAATGCTGTTCTCTTCCTCTCTTCACAATCTCTTG TCTTGGGCCTTGAAAGCCCATGGATATATCTATTCCACAACTAGTCAGCATCATTAATAA GCTCTTGTATTGTTTTAAGGTGTTCTTAAATTTTACAAGTGTGTAGTTGTGATTTATGTT GCACAGAACATTCTTTCCTTGTATATACTGTTTGACTTGAATTGGAGCATATGCATGGTG ACATCTAGTTTGACTTTAGCACCGACACAACTTAGATGGTTTGTGAGATAGAATTGTAGG GTTCAAATGTAATTCTGATAAGATCTATAATTTTACATGGCTATGCATTAAATATTACCT TACCTATAAGAGCTGCAGTTTTGAGGGATCTATGCTTGGTTAGGACTTCTCCCTCCTTTC CTAAATATAAGTCATTTTAGAGATTCCACTACGAAATGCATACGAATGTATATAGACATA CTTTAGAGTGTAAATTCACTTATTTTGCTTCGTATGTAGTCCATAGTGGAATCTCTAAAA AGACTTGCGCTCCGTATTCAAGAATGGAGGGAGTAGAAGAGTATGCCTTTTGTCATTTTC CTGTGGGTTCATTATCATTATAGATTTCTGGATTGTATGCTGGTGCTACTACATGATCAG TTTCATCCTGTAAACACGACACTCCGATATTAATTCTCTGTGGTCCCTGCCCCACTTCCA TTTCCAGCATGATCTACTACTGCTAATATTATCATTTATGTCTGTTATGTTGTCCTTTGT AATTTGGAATTATACTTTAAGCTTATTCTTCCACTAATGATGATGCAGCAGGCACTTCAA ATGGGAAAGAAGTGTATGGGGCTGGCCTTAAAAATGCTGCTGGAGAATACAACTGTTTCC TGAATGTGATTATCCAGTCATTATGGCATTTGAAGCGGTTTCGACACGAGTTCCTTAAAA CATCATCACTGCATAAGCATATTGAAGATCCTTGTGCTGTCTGTGCATTATATAATATAT TCGTTGACTTGAGCAAAGCATCTGAGGGGCAAGGAGAAGCTGTTGCACCTACTTCTTTGA GGATAGCTTTGAGCAAATCCTATCCTAACAACAGGTTCTTTCAGGAGGGACAAATGAATG ATGCATCTGAGGTATTGGGTGTGATCTTTGAGTGCTTGCATAAGTCGTACACTTCTCGGG CTGAGTGCCATGCTAAATCTCACGAGGGCAATTCTATCGGCTCATGGGACTGTGCAAGCG ATTTTTGCATTGCACATTGTCTTTTTGGAATGGATGTCTATGAACGGATGAACTGCCACA ATTGCGGATTAGAGTCTAGACGACTTAAGTATACCTCATTCTTCCACAATATCAATGCTA GTTCACTTCGAACTGCAAAGATGATGTGCCTAGATCCATTTGATGATCTTTTGAAGACTG TGATAATGAATGATCAGCTAGCTTGTGATCCTGACGTTGGCGGTTGCGGAAAACCGAATC ATATACACCACATTCTTTCTAGTTCCCCTCATGTTTTTACAGTTGTTTTGGGATGGCAGA ACAGCAAAGAGAGTGTTGATGACATAGCTGCAACCTTGGCTGGTATTTCGACTGAGATAG ACATCAGTGTTTTCTACCGTGGTCTAGATCGAGGAAGCAAACATTTTCTTGTGTCAGTGG TTTGTTACTATGGGCAGCATTATCATTGCTTTGCTTTCGAGGATGAGCACTGGGTCATGT ATGATGACCAGACTGTTAAGGTTATTGGTAGCTGGGATGATGTGGTCATTATGTGTGAGA AAGGTCATTTACAACCTCAAGTGCTCTTCTTTGAAGCTGCAAATTAATTTTCTTCAAAGT TCAAGGGTGCTGTGCTGTGCTGTGCTGTGCCGTGGTGTGGTTAACATGTCTTCCGAGATA TAGGTTTTCCCGGTGACTGAGAAGGTTAGCGATAGAATACAAAATTCGTTTTGAGCTATG GGGGATAATGGTGGTAATTTCAGCAGTTGCACTTGCCTGTCGGTTTTGTCGAGCCCTGCC TTAAATAAATGGTCGTCCGAGCCTTTACTAAAAGGAGAGAAGTGGTGATATATATATTTT CCTTTTGGACTTTGGATATAGCCTGACCCCATATCCTGTCGAATGCGATTTTGCCGTGGA GGACTGTAGCGGGGATAACTCTACTCGATCATGTGCTGCCCCAGAGAAATTATTCATGAG TGCTGCTGAATTTGCTAGAAGCTTATCAATATATACGGTTTTTTTGTGCTTACGATGTGG AGGAATGTTGTACTGTGTGTGACGAAGGGCGGGGGGTATCAAAGAAAATGGATGCTGTCA TTTTTCTTTTTGTTGCAAATTCCTGGGAGGGGGTTTCTTATCATCTGTAGTGACAAAGTT GTATTATCTCAGAATGTTGTGAAGCCTGTTTTCGCTGGCCATGACGAACACGTAAAGTTA TTGCTCCTGGACCTCCTGTCGCTTGTTATCTTGCTGTTTGGTG
Protein Sequence (618 aa)
>BART1_0-u30923.007 618 150831_barley_pseudomolecules VDLAPDSLELAHFRALLLYDAATDNRAYEEVIAECERGLRIDEPSDPEPHSLRLPAPDPD QLRAELRNLVQKANLASISTWVKTLGGSDDKLGFFRLADDPLELQLLPAAPAPRRPNEIK KATKTVEERRKEIEVQVAALRLLEQQQQQHNAAAALSSSPPQSQQGDEPPSSSSQSTASG HRADRRKGGSKRATVSSASDQRNQNHLEELADKDARERSDAARDAFLAELALDAEKSANK GVDKKLTHEKSKDKKRMKDSRRSKDIKDLSWSDQYIVRQDSADEETSEQAQTLVDCDDFD GKLSLSDEYSNEQEEELRHRVQLEAEERKLEETLEYQRRIEEEAKQKHLAEQSRSTSSAP DIGTNGYSTDVNSSVHQDNHQSAPNNVSPAYLEGIKFGDFRFPKVPSREKNSSSDFCGVD LPQKTENNRREKPNGLCSPGAHALTSNNVDFTKPALKMNGVGKYAQNTKLATNPLIQRSK SSTSQPHKKYIQGAVHNGDDSASSRQNGTAALRWSSSGKAADYSSNSYQDGRQNELPPVL SSDDPWNANKAEKADKGAISPAIVCIEDDSDKRFEEDLRKAVHQSLGTSMLFSSSLHNLL SWALKAHGYIYSTTSQHH