Sequence
atgc intronic sequence ATGC exonic sequencegtagattttgtttccaattttgatatctagatttgattcattccgagaaaaatcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73670.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 1
-------------gtagattttgtttccaatttt-----gatatcta--gatttgattcattccgagaaaaatcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
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gattttatgctgaatagagattgtagtaggtcacaagaagagatccaatgaagttatagtcttcaaattatgtttctaatggtttctggtgatcaagcagGGTGCACCAGAGACAGAGTTTTTTACCGAGTATGGAGAGGCAAGTCAATATCAGATCCAAGAGGTTGTTGGAAAAGGAAGTTATGGTGTTGTGGGTTCTG
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 1
------------------gtagattttgtttccaatt--ttgatatc-tagatttgattcattccgagaaaaatcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
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atcttgtaatcttcttgagtaggtcaagtaaataaatgatcagtttcattgacaatgttggatcatttgaaggttactgatattagtttgtt-taacacagAGCATGCTTGACAAAGAATTCTTCACAGAATATGGTGAGGCAACTCAATATGAAATCCAAGAGGTAGTTGGCAAAGGAAGCTATGGCGTTGTTGCATCTG
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 1
-----------------gtagattttgtttccaattttgatatctagat--ttgattcattccgagaaaa--atcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
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aaaaaaaatattttcttctccattctgta-ctaattcaaccatttatatacttgattaattgataaataatgattgctaagggagaccattttttactcagGGCATGCCAGAAACAGAATTCTTCACAGAATATGGAGAGGCGAGCAGATACCAAGTCCAGGAAGTTGTTGGCAAAGGAAGTTATGGTGTTGTTGGCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagatttgattcattccgagaaaaatcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
atttgat putative branch site (score: 5)
tttctc putative PPT
aaaaatcatgaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattttgtttccaattttgatatctagatttgattcattccgagaaaaatcatgaataaaatctagcaatttctcagGGAATACCTAATGCTGAATTCTTCACGGAGTATGGAGAAGCAAATAGATATCAGATTCAAGAAGTAGTTGGCAAAGGAAGCTATGGAGTTGTTGGTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA