Sequence
atgc intronic sequence ATGC exonic sequence...attattcttgttcactgtacaatttggatcaacttgttttaattcatcttttgagacccttcatttttcaatttataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGATTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
Basic information
species | Glycine max |
transcript | GLYMA12G06150.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G06150.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G12080.2 (Arabidopsis thaliana), 3'ss of exon 6
-------attattcttgttcactgtaca--atttggatcaacttgttttaattcatcttttgagacccttcatttttcaatttataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGATTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
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tagcattgacaactatgttcaataggcatcactttacaaaccaaatattaaaacattttcttacatctgttgcacccatacgattcaatgacttttctagATCATGGAGAACATTGAAGAGGAGGAAGAAGAAAACTACATTCCTGCCATTGCAATTATTGGTCGGCCAAATGTTGGCAAAAGTAGCATTTTAAATGCAC---------
upper sequence: GLYMA12G06150.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g02070.t01 (Vitis vinifera), 3'ss of exon 7
attattcttgttcactgtacaatttggatcaacttgttttaattcatcttttgagacccttcatttttcaattt-ataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGA---TTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
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-ttctttcatttcaatcatccataagcatgcccatattttcccctattcatctggattatatacttaggttcttgataaattttttcatgctaatatatagGATCCTGAGAATCTTGATGGAGAAGAAAATTATGTTCCTGCAATTGCAATTGTTGGACGACCAAATGTTGGTAAAAGTAGCATTTTGAATGCATTAGTTG---Mapped 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|6482378|gb|AW201641.1|AW201641EST: GAACTGGAGAGCTTCTTGACCTTGTTTGTTCTGGCCTACAGAAAATTGAG GAATCTAATAATCTTGATGAAGAAGATTATGTTCCAGCAATTTCAATTGTT
genomic: GAACTGGAGAGCTTCTTGACCTTGTTTGTTCTGGCCTACAGAAAATTGAGgtttgttttc ... taacctatagGAATCTAATAATCTTGTTGAAGAAGATTATGTTCCAGCAATTTCAATTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttttgagacccttcatttttcaatttataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGATTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
tgctaac putative branch site (score: 1)
ctttctgct CT-rich tract
ttcatttttcaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attattcttgttcactgtacaatttggatcaacttgttttaattcatcttttgagacccttcatttttcaatttataatttactttctgctaacctatagGAATCTAATAATCTTGTTGAAGAAGATTATGTTCCAGCAATTTCAATTGTTGGTAGACCTAATGTTGGCAAAAGTAGCATTTTGAATGCACTGGTTGGTG
- - - - - - cactgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctgc