Sequence
atgc intronic sequence ATGC exonic sequencegtatgaacaattgttcttgtttttttttttcttttacgaagtgcaaattgtatggaatgtactttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G01790.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G39770.1 (Glycine max), 3'ss of exon 6
gtatgaacaattgttcttgtttttttttttcttttacgaagtgca---aattgtatggaatgtactttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
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--------gtttgtttttcttcattctttcccctttagtcttgtgctcaattttgtaaattttaactgactttgtaagacatctatcc-----cagGTGAACGAGGAAGAAGCCTCCCTCTTTGACATCCTCTGGTTATTACTTGCAAGTGTTATATTTGTGCCAATATTTCAAAAAATCCCTGGAG
upper sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 2
gtatgaacaattgttcttgtttttttttttcttttacgaagtgcaaattgtatggaatgt-actttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
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--------------gtttgtttcccttgttcttatgctcaatt---attaagttttatctgactctgca---tggtatttatc-------atagGTGGATGAGGAGGAAGCCTCCCTCTTTGACATGCTCTGGTTACTACTTGCAAGTGTTGTATTTGTGCCAATATTTCAAAAGATTCCTGGAG
upper sequence: AT1G01790.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 1
gtatgaacaattgttcttgtttttttttttcttttacgaagtgcaaattgtatggaatgtactttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
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--------gtccacttatattagttccaattttgggctaaaggccaac---atttagtgcactttctca--tatctctttccttttctctcagATGAATGAGGAAGAAGCTTCCCTTTTTGACATGTTATGGTTACTGCTAGCAAGTGTTATATTTGTGCCTATATTCCAGAAAATTCCTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtgcaaattgtatggaatgtactttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
ctttctgc CT-rich tract
aattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaacaattgttcttgtttttttttttcttttacgaagtgcaaattgtatggaatgtactttgcaggctgaaactttctgcaattaatagGTCAATGAGGAAGAAGCTTCCCTCTTTGACTTTTTGTGGTTACTGCTAGCAAGCGTCATATTTGTGCCTCTATTTCAGAAAATTCCTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG