- Transcript BART1_0-u43238.005
- Transcript IDBART1_0-u43238.005
- Gene IDBART1_0-u43238
Barley RTD
Exon Structure of BART1_0-u43238.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 64215270 | 64214436 | - |
| chr6H | 2 | 64215646 | 64215404 | - |
| chr6H | 3 | 64216573 | 64216523 | - |
| chr6H | 4 | 64217552 | 64217463 | - |
| chr6H | 5 | 64218157 | 64218076 | - |
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 | 0.177547 | 0.25263 |
| morex | ETI | 0 | 0.272961 | 0.11818 |
| morex | LEA | 0.253783 | 0.140539 | 0.287564 |
| morex | EPI | 2.16458 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0.321097 | 0 |
| morex | RAC | 0.270655 | 0.192516 | 0.186054 |
| morex | INF1 | 0.111628 | 0.11406 | 0.453923 |
| morex | INF2 | 0.629141 | 0.290405 | 0.324969 |
| morex | CAR5 | 0.765761 | 0.312888 | 0.519685 |
| morex | CAR15 | 0 | 0.129987 | 0.166973 |
| morex | LEM | 0.185407 | 0.422828 | 0 |
| morex | LOD | 0.276788 | 0.432231 | 0.466847 |
| morex | PAL | 0.243288 | 0.688052 | 0.199409 |
| morex | SEN | 0 | 0 | 0.263354 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g05450.1 | +2 | 2e-52 | 187 | 140/286 (49%) | protein|Homeobox domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi3g03747.3.p | +2 | 1e-116 | 358 | 194/289 (67%) | 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 (1301 bp)
>BART1_0-u43238.005 1301 150831_barley_pseudomolecules TGCGCCCAAGTGGTTGCTACTAAACTTTTGGGTGTACTCTTTATGCCGTGCATGGGTTTT ATACTGGTCTGCCCAAAAATTGGTACTACGCAAATCTTTTGCTGAAAGCGAGCTTCCAAC CCGGGAGGTGAAAGAGAATCTCTCAACAGAATTGGGTATTTCATTTGAAAAGATTGACAA GTGGTTCAAAAATACAAGGTGTGCTGCTCTCAGAGATCGGAAGGCTGAAGGAAATAGCCG TGTTGCTGGCCCCAGCAAAAGATCGAGACGGAGTGCAGGGAAATCTGGAAGTTCAGGCAA GGTTGATTCAGTGGACAATTCATATCTTCTTCCCGCGTCTGAAATCATCAGTGTACCTAC ACATCCACAAGGGATTCCTGAGAGGAAGCCCGAATCAACCAGTAGAACTGTGAGGGGGCG GGTACACGATAAAGGAGCTCCCTTGTGCCTGACCGCCAAAGTCAAGGAGAGTACATCACC TACAACCAAGCCTGTCTTGAACACACACCCTACTCATCTAGCAGATCGCATCATCAACAC TGAGCATAGAGCTGTCTCTCAGGAGGACACAGGGCCCTCCGATGACCCTTTCTTCGATGC GATCCTATCCTATCCCACCATCAACACAAGCGACAGAGCTGCCTCTCGGGATGATCCGGT GGCCTTCGAGGACGACCCTTTCCTGGACGTGATGCTAGCAAACCGCGACATCTATACCGA GGAGAGAGTCGCTTCTCACGAGGACGTGAGGCGGACTTCCAGCGACCAGCCTTTCCTGGA TGTGATCCAGAACGTGTGCGGACTCGAGCATAGGCTGCAGAGACTGAAGGGGGACATGCT ATCATCATCAGCAGCACCAGGCGGCGCTGGAACCACAGAGCGCGACCTGCAGAGCCAACT AGTGGTTCTCGTGCCAACCGCCGAGCTGAAGGACAAATCACAGCCTGGCATCTGAAATTC CGGGTGCGGATGCGACGCTCCGTTTGCGTGTTGTCGATAGGAGTTACTAAAACATATAGA AGAAATAGTGTAGAGAAGGAGAAGAGAAAGAAAAGTAGTGGCTCTAGTCTAGGGTTCTAG CCGACAAGGGGCCTCAACCGTGGTCGTTACTGTGTGTCACATTGAAGTGCGTCTTCGTTG TTACTTAGTATACAAGGGCAGTTGTTACTGGTTTTAATGGGTTGGAGTTATATACTTTTC GGGGTTCAAAATGTTTGGTTTGGAACCATGTCGATGTGCAAACTTTGAGTAACCTCAATT CTCATTTTTTTTCCCATTTTACTAAAAAAAATCAGTTTTAC
Protein Sequence (317 aa)
>BART1_0-u43238.005 317 150831_barley_pseudomolecules APKWLLLNFWVYSLCRAWVLYWSAQKLVLRKSFAESELPTREVKENLSTELGISFEKIDK WFKNTRCAALRDRKAEGNSRVAGPSKRSRRSAGKSGSSGKVDSVDNSYLLPASEIISVPT HPQGIPERKPESTSRTVRGRVHDKGAPLCLTAKVKESTSPTTKPVLNTHPTHLADRIINT EHRAVSQEDTGPSDDPFFDAILSYPTINTSDRAASRDDPVAFEDDPFLDVMLANRDIYTE ERVASHEDVRRTSSDQPFLDVIQNVCGLEHRLQRLKGDMLSSSAAPGGAGTTERDLQSQL VVLVPTAELKDKSQPGI