- Transcript BART1_0-u43238.006
- Transcript IDBART1_0-u43238.006
- Gene IDBART1_0-u43238
Barley RTD
Exon Structure of BART1_0-u43238.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 64215270 | 64214436 | - |
| chr6H | 2 | 64215646 | 64215404 | - |
| chr6H | 3 | 64216573 | 64216523 | - |
| chr6H | 4 | 64217552 | 64217463 | - |
| chr6H | 5 | 64219227 | 64219027 | - |
| chr6H | 6 | 64219737 | 64219411 | - |
| chr6H | 7 | 64219961 | 64219846 | - |
| chr6H | 8 | 64220590 | 64220542 | - |
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 | 1.50546 | 0 | 0 |
| morex | ETI | 0 | 0 | 0.799707 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 3.09861 | 3.19713 | 2.46294 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.717832 | 0.216118 | 0.000000110045 |
| morex | NOD | 0 | 0.172356 | 3.21131 |
| morex | RAC | 0 | 1.30443 | 0.229238 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 1.62228 | 0 | 1.29493 |
| morex | LOD | 0.536501 | 0.140625 | 4.41993 |
| morex | PAL | 0.00000000273324 | 0.225142 | 0.0000000992279 |
| morex | SEN | 2.89999 | 1.58675 | 1.23176 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g05450.1 | +1 | 5e-159 | 473 | 289/508 (57%) | protein|Homeobox domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi3g03747.3.p | +1 | 0.0 | 694 | 362/511 (71%) | pacid=32817691 transcript=Bradi3g03747.3 locus=Bradi3g03747 ID=Bradi3g03747.3.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 (1912 bp)
>BART1_0-u43238.006 1912 150831_barley_pseudomolecules TGAAACTATGTTTTCCAGTACTAAATGATCTCAGTTTGATCTTTATTAAGTCTTCCTACT GGTGGTCCTGGATGGCTTTGTAAATTCTGTTTGTGCAAGATGAAAATTTTAGAAGCTGTT AATGCACATTTGGGAATGAGCCTTACAGTGATGTGTCCCTCTAAAGATATTTTTAAGGAA GCAACTGAACAGATGGACTCTGAGGATGGACTAGGAGAGGATTGGTTATCTGAGTATTCA GGTGATGAGGACTATGACCCTGAAGAAAATGACTTCACAAGCAGCAGCCTGGATAGTGGT GAAGAAAGGATATCTGATCAGTCCAATTGTTCAGGAAGTCCGCTTTATTCTCCAAACGAT GATATTCCAGGCTTTATATCAGCAGATTTCACTGATGCGGAAGGATTCTACCACACCAAT TCAAATTTAGGAATTGATTCTGGGGATGATGATGCTGCCGAGATGCTTACCTACCAAAGG CCAAAGAAAGAGGAAATGTTTGGAAAGCTGACTGACAATGAAAAGCAGAGTGAAGATGAA GATTGGGGTACTAGTAATAAGAGAAAGAAAAGAAGAGTGGATTCAGCTGGTGTTGGAGTT AAGTCTGCCGAGGGTTTCTCAGATGTAAAATCAAATGAGAAAGTCCAACCGCAGAGGAGA AAACTTTTCAGAATTCCTCCTGAGGCAGTTCAGGTACTACGCAAATCTTTTGCTGAAAGC GAGCTTCCAACCCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTATTTCATTTGAA AAGATTGACAAGTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAA GGAAATAGCCGTGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGA AGTTCAGGCAAGGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGTCTGAAATCATC AGTGTACCTACACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACT GTGAGGGGGCGGGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAG AGTACATCACCTACAACCAAGCCTGTCTTGAACACACACCCTACTCATCTAGCAGATCGC ATCATCAACACTGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCTCCGATGACCCT TTCTTCGATGCGATCCTATCCTATCCCACCATCAACACAAGCGACAGAGCTGCCTCTCGG GATGATCCGGTGGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAGCAAACCGCGAC ATCTATACCGAGGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTTCCAGCGACCAG CCTTTCCTGGATGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAG GGGGACATGCTATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAGAGCGCGACCTG CAGAGCCAACTAGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAATCACAGCCTGGC ATCTGAAATTCCGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTA AAACATATAGAAGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTC TAGGGTTCTAGCCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTCACATTGAAGTG CGTCTTCGTTGTTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTT ATATACTTTTCGGGGTTCAAAATGTTTGGTTTGGAACCATGTCGATGTGCAAACTTTGAG TAACCTCAATTCTCATTTTTTTTCCCATTTTACTAAAAAAAATCAGTTTTAC
Protein Sequence (488 aa)
>BART1_0-u43238.006 488 150831_barley_pseudomolecules MKILEAVNAHLGMSLTVMCPSKDIFKEATEQMDSEDGLGEDWLSEYSGDEDYDPEENDFT SSSLDSGEERISDQSNCSGSPLYSPNDDIPGFISADFTDAEGFYHTNSNLGIDSGDDDAA EMLTYQRPKKEEMFGKLTDNEKQSEDEDWGTSNKRKKRRVDSAGVGVKSAEGFSDVKSNE KVQPQRRKLFRIPPEAVQVLRKSFAESELPTREVKENLSTELGISFEKIDKWFKNTRCAA LRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASEIISVPTHPQGIPERK PESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLADRIINTEHRAVSQED TGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDPFLDVMLANRDIYTEERVASHEDV RRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTERDLQSQLVVLVPTAEL KDKSQPGI