Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatgtcttttccatgggtcctagtataacaacataggtgtaacatgtccgtaaaattggtggcctcataaatgaaataataggtttttgatgctggtagttgtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32730.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
gtaaatatgtcttttccatgggtcctagtataacaacataggtgtaacatgtccgtaaaattggtggcctcataaatgaaataataggtttttgatgctggtagttgtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA
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------------------------------------------------aagtgaatataattgccattttcccatcagaactcggaaatatcctttctacgaaattaag---cataatttctgaaatg----------tctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT
upper sequence: AT4G32730.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S120_159V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaaatatgtcttttccatgggtcctagtataacaacataggtgtaacatgtccgtaaaattggtggcctcataaatgaaataataggtttttgatgctggtagttgtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA-
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gtaattatttgattttt-----tccta-cctgagaa-atagattt----tgttcttccacttccatgc---acagccgaagtc-taaattg-----gcggacacttatcattgatc---cttactataat--ttttgttgtacccatccggacttttgcagTACGGACAATTCGATAAAAAATCACTGGAACAGCACAATGAAGAAGAAAGTGGATCCCTTGACGGCAAATGATCCAATCT-CTAAAGCGCTGGCTGTCTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA
ttcttac putative branch site (score: 2)
cttattttttcttacg CT-rich tract
atttgcttatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatatgtcttttccatgggtcctagtataacaacataggtgtaacatgtccgtaaaattggtggcctcataaatgaaataataggtttttgatgctggtagttgtggtctatcgttcctgctttggtgatttgcttattttttcttacgttcctgtagGTCAGATAATTCGATAAAAAATCATTGGAACAGCTCAGTTAAGAAGAAGTTGGATTCCTACTATGCATCAGGTCTTTTAGATCAGTGTCAAAGCTCGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA