Sequence
atgc intronic sequence ATGC exonic sequenceGGGGGAGAATGACAGAGGTGTCTCTTATACATTTGGGGCTGACAAAGTAGCTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAGgtaaagctaaaatttattccttgagttctctcttttgatttctctggattggtttgttcttctctgtgactgttctctgaattcagagggttaagaaatcataactcagttgttaatgcaaggatctgtagttttttcaccaagccaagttttacttaactatactgttcctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G11240.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G11240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G02180.1 (Glycine max), 5'ss of exon 2
GGGGGAGAATGACAGAGGTGTCTCTTATACATTTGGGGCTGACAAAGTAGCTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAGgtaaag----ctaaaatttattccttgagttctctcttttgatttctctggattggtttgttcttctctgtgactgttctctgaat-tcagagggttaagaaatcataactcagttgttaatgcaaggatctgtagttttttcaccaagccaagttttacttaactatactgttcctgcag
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GGGAGAAAATGACCGAGGTGTGTCATTTACATTTGGGGCTGATAAGGTTGCTGAGTTTCTTGAACATCATGATCTCGATCTGATTTGCCGAGCTCACCAGgtaatgaaacctgaagtttggtc---aatttctatgattttattgctcct-attggattgtgatcatctgtggctataggtagtatctttcatggtttgtactt-----------------------------------------------------------------------------
upper sequence: AT4G11240.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv02s0025g00480.t01 (Vitis vinifera), 5'ss of exon 2
GGGGGAGAATGACAGAGGTGTCTCTTATACATTTGGGGCTGACAAAGTAGCTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAGgtaaagctaaaatttattccttgagttctctcttttgatttctctggattggtttgttcttctctgtgactgttctctga-attcagagggttaagaaatcataactcagttgttaatgcaaggatctgtagttttttcaccaagccaagttttacttaactatactgttcctgcag
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GGGAGAGAATGACAGGGGTGTGTCTTACACATTTGGGGCTGACAAGGTTACTGAATTCCTTCAGAAACATGACCTTGATCTCATTTGCCGAGCTCATCAGgtaa--ttgtaactggaaactaccttttttgatcctgatatct-tgaatgcatatgc----ctgtgtgagtggaaactgacatgttctgaattgacatatttggatt----------------------------------------------------------------------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|86077523|gb|DR373280.1|DR373280EST: CTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAG GTTGTAGAAGATGGATACGAGTTCTTTGCAAAGAGACMMCTAGTGACAATA
genomic: CTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAGgtaaagctaa ... gttcctgcagGTTGTAGAAGATGGATACGAGTTCTTTGCAAAGAGACAACTAGTGACAATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGGGAGAATGACAGAGGTGTCTCTTATACATTTGGGGCTGACAAAGTAGCTGAGTTCCTTCAAACTCATGACCTTGATCTTATATGCCGAGCTCATCAGgtaaagctaaaatttattccttgagttctctcttttgatttctctggattggtttgttcttctctgtgactgttctctgaattcagagggttaagaaatcataactcagttgttaatgcaaggatctgtagttttttcaccaagccaagttttacttaactatactgttcctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA