- Transcript BART1_0-u19417.004
- Transcript IDBART1_0-u19417.004
- Gene IDBART1_0-u19417
Barley RTD
Exon Structure of BART1_0-u19417.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 156626357 | 156625628 | - |
| chr3H | 2 | 156627286 | 156627225 | - |
| chr3H | 3 | 156628029 | 156627930 | - |
| chr3H | 4 | 156628966 | 156628521 | - |
| chr3H | 5 | 156629813 | 156629587 | - |
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 | 0.563646 |
| morex | ETI | 0.174575 | 0 | 1.35708 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0.142934 |
| morex | ROO | 0.409621 | 0 | 0 |
| morex | ROO2 | 0 | 0.527657 | 0 |
| morex | NOD | 0.790729 | 0.703949 | 0.922136 |
| morex | RAC | 1.20508 | 0.631498 | 0.160768 |
| morex | INF1 | 0 | 0.504097 | 0 |
| morex | INF2 | 0 | 0.0000929804 | 0 |
| morex | CAR5 | 0.747281 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.24475 | 0.157022 | 0 |
| morex | LOD | 0 | 0.176442 | 0.212733 |
| morex | PAL | 0 | 0.17215 | 0.435192 |
| morex | SEN | 0.246949 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os05g14180.2 | +1 | 1e-54 | 184 | 124/181 (69%) | protein|OsIAA17 - Auxin-responsive Aux/IAA gene family member, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g07770.1.p | +1 | 8e-76 | 239 | 137/157 (87%) | pacid=32771633 transcript=Bradi2g07770.1 locus=Bradi2g07770 ID=Bradi2g07770.1.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 (1565 bp)
>BART1_0-u19417.004 1565 150831_barley_pseudomolecules CTGAAAGGCACCGAGCTCCGCCTCGGACTTCCCGGCTGCGAGTCGCCGGACCGCCGCCCG GTCGCCGCCACCACCACACTGGAGCTTCTGCCCGCCAAGGGCGCCAAGCGAGGGTTCTCG GACGAGGTCCTGCCGCCTGCGCCGTCTGCCGCCGGCGGGAAAGGCAAGGAGACGTCCGGG GATGAGAAGGACAAGAAGGTCGCCGCACCGCCGCAGCCTGCTGCCAAGGCTCAGGTGGTG GGATGGCCACCAATCCGCAGCTACCGCAAGAACACGATGGCAACCACCACCAACCAGCTG AAGAGCAGCAAGGAGGATTCTGACGCGAAGCAGGGGCAAGAGTTTCTGTATGTCAAAGTC AGCATGGATGGCGCGCCTTACCTGAGGAAGGTTGACCTCAAGACATACAAGAACTATAAG GACCTGTCTCTGGGGCTAGAGAAAATGTTCATTGGCTTCAGCACCGGTGAGGCTGCTCGG ATCCTCGGCAAATTGTTGCTGTTTCCATCTGCACCTGAAATTTGATCTGTGGTAGAAGAA ATGCATCATTGCACACATCTCGTTTTGTTGAAGAAATAATCAATTACTCTGTTTGGAAAT GTTCTAGCAAATTTCAGGTTTATGAAATTGACGAAGAAGACTCTTTTCAGGGCTGGCGAA ATTGGTTATTGTGGTAAAGATGGTGTATCTGAGAACAGAAAGGATGGTGAATACGTGCTG ACCTACGAAGACAAGGACGGAGACTGGATGCTGGTTGGTGACGTCCCATGGGAGATGTTC ACCGAGTCTTGCCGAAGGCTGAGGGTCATGAAAGGTTCAGATGCAGTTGGACTTGCAGTT CCAAGGGCAGGGGATAAGTCCAAGAATAAGAACTAAAGCGGTTGCTGCCCACAGTTTGAA GACGGGGTCGCACATACCGTCTGTACTACCGCATGGTTTTTCTATCCCGCAAGTAAAATC ACTCCGTTACTCTACTGTTGTAAGATTTGTGATGTCTCCTAGAGACTTATGCTTTATATT TTGTCGTGCCGAAGTTGTTGTACGCATGCTATTTCCATCCGTGTAAATGGTTGGTAAGCA GTGCGAGAGCTACTGCTGTGATTTGATGACTTCTATGTATTTTGCCAGTGTTGTCCTGAA CCGGCCGTTCGTCGTAAATGTGAGGGTTGCAAGACAATTATTTACCTGATGAACTTTGCT TCCGTACACCCTCCTAGAAAAGTTTACAGATTTCGATGTAGGTTAGAAGTTACTGCACTT TAATTATTAAATAGAAAAAAGGGCAACATAGTCTTTCGTATCCAAATCAATCTATTCGGT ATGTTTGATCTGCAGGCTAATATGACGACAGTCTTTTTAAGTAAATTTAGGCTGCGTTTG GATTGAGTGTAAAATAATACAGAGGTATTTTTTTCTACACGTGTAACTTACCGGCCAATG TATAATTTCGGGCAGAAAATGAAACGACCGATCGACGCATGCATCTTTTACGGAGGTATT TCCAGCTGAAACGCTGATCCAAACAGGCCATTAAGATTCATGAAAACTTTTAAGGAGGGT GTACC
Protein Sequence (174 aa)
>BART1_0-u19417.004 174 150831_barley_pseudomolecules LKGTELRLGLPGCESPDRRPVAATTTLELLPAKGAKRGFSDEVLPPAPSAAGGKGKETSG DEKDKKVAAPPQPAAKAQVVGWPPIRSYRKNTMATTTNQLKSSKEDSDAKQGQEFLYVKV SMDGAPYLRKVDLKTYKNYKDLSLGLEKMFIGFSTGEAARILGKLLLFPSAPEI