Sequence
atgc intronic sequence ATGC exonic sequencegtatactattttactgactaattattagacataaaagctcattgtggtcactctgcttctgtttttttcataccattaagaaatctcagtggtaatttgctagctgaatactcacgataactattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06670.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA17G03570.1 (Glycine max), 3'ss of exon 15
gtatactattttactgactaattattagacataaaagctcattgtggtcactctgcttctgtttttttcataccattaagaaatctcagtggtaatttgctagctgaatactcacgataa-ctattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
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------------------------------gtattgcttcctctatgccaatttgatc---tgtataaaatttcacttgactgttttttattttactta-tgattaatttctaatgggaaaccattgtgatggttgcagAACAGATATCCTCATTCTTTTCTTGAATCAAGACCCTAATCTTCTGCGATCCTATTTTGTTCGACAGGAAGGATTTGCTCTTCTTGGACTTTTG
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA07G37040.1 (Glycine max), 3'ss of exon 13
gtat-actattttactgactaattattagacataaaagctcattgtggtcactctgcttctgtttttttcataccattaagaaatctcagtggtaatttgctagctgaatactcacgataactattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
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gtattacttcccctttgccaatttgatctgcataaaatttcact-tgacttttgtatttttttactttccttatgattaa-----------------tttctaatagga----------aatcattgtgatggttgcagAACAGATATCCTCATTCTTTTCTTGAATCAAGATCCTAATCTTCTGCGATCCTATTTTGTTCGACTGGAAGGATTTGCTCTTCTAGGACTTTTG
upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 15
gtatactattttactgactaattattagacataaaagctcattgtggtcactctgcttctgtttttttcataccattaagaaatctcagtggtaatttgctagctgaatactcacgataactattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
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-----------------gtaatgaatgaacccagaatatctgtctttagcataaaattcagcttttcttaatctgc---atttccttaccattgatttggt--cctaacaagaa-gtcaattgt--ttatggatgcagGACAGACATCCTCATTCTTTTCCTGAATCAGGATCCAAACCTTCTGCGTTCTTATGTCATTCGGCAGGAAGGAATTCCACTTCTTGGACTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcagtggtaatttgctagctgaatactcacgataactattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
ataactatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatactattttactgactaattattagacataaaagctcattgtggtcactctgcttctgtttttttcataccattaagaaatctcagtggtaatttgctagctgaatactcacgataactattgttgtggatgcagGACAGATATCCTGATTCTTTTCTTGACTCAAGACCCCAACCTTTTACGTTCTTATGTTGTTCGGACAGAAGGAAACCCCCTCCTCGGTCTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC