Sequence
atgc intronic sequence ATGC exonic sequence...gtccattgtagaaaatttctgtttagctgctttatcattttggatggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
Basic information
species | Glycine max |
transcript | GLYMA02G10590.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G10590.2 (Glycine max), 3'ss of exon 11
lower sequence: AT3G12520.2 (Arabidopsis thaliana), 3'ss of exon 12
--------------gtccattgtagaaaatttctgtttagctgctttatcattttggatggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
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gtaagttcaaataaacccaccagaaaagaatctggggtgtgtactt-attgtctt---tggttattgagcaatatatattcacatttattctttctggatgtttaccatattagGTGGACTATGAAGGGGCAATCTTTCTGTGGCGTGTGGACAAGAGAGATTTTACTCTTTGGACCATCACTAGCACCACCACTTTGTTCTTTGGAATAGAGA
upper sequence: GLYMA02G10590.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 11
-----gtccat-tgtagaaaatttctgtttagctgctttatcattttggatggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
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attattttcatatatagagtaacttacttgggttgatccataagagtgagt--ttcattggtttggcgatgttcaatctctttgttatgtttata----atttcagGTGGATTATGATGAAGCTATTTTTTTATGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCCTTACCAGCACTATGACATTGTTCCTTGGTATTGAGA
upper sequence: GLYMA02G10590.2 (Glycine max), 3'ss of exon 11
lower sequence: PP1S53_215V6.1 (Physcomitrella patens), 3'ss of exon 11
-------------------------------gtccattgtagaaaatttct----gtttagctgctttatcattttggatggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
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gtatatcttctaacctggtacacaaaaccatgattaccctagaaactatctcgcagtgaggttgcg--atcattttttaattttattacacctttgtagtcaaatcttgttagtg-tggatgtaatacgctgcagGTTGATTATGATGAGGCAATATTTTTGTGGCGAGTGGACAAGAAGGACTTTCTTCTCTGGCTTTCTACTAGTACTTTAACGCTTTTTCTTGGCATTGAGGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|21889624|gb|BQ742837.1|BQ742837EST: CACCCTTGCTGCCATTGTGATCTCTGCTGTGATAGGTCTG GTAGATTATGATGAGGCCANNNNNNNGTGGCGTGTAGATAAGAAAGATTTT
genomic: CACCCTTGCTGCCATTGTGATCTCTGCTGTGATAGGTCTGgtaagaattc ... gatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
tcttaat putative branch site (score: 3)
tttttc putative PPT
attcattcttaatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccattgtagaaaatttctgtttagctgctttatcattttggatggttatcttgtttgtcaactaagcattcattcttaattctcgcatgatttttcagGTAGATTATGATGAGGCCATTTTTTTGTGGCGTGTAGATAAGAAAGATTTTCTTCTTTGGACCATTACTAGCACTACAACATTGTTCCTTGGTATTGAGA
- - - - - - - - ttctgtt
- - - - - - - - - - - -tagctgc
- - - - - - - - - - - - - - - - - - - - tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaagca