Sequence
atgc intronic sequence ATGC exonic sequence...agattttgttccatctttctagttagttgatttctttttcagttctattcatttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 4
agattttgttccatctttctagttagttgatttctttttcagttctattcat---ttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
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caaattcattg-gtctttttaatgcatt-attcatcaaaataaaatgttcaagggttttttttaattcccttattatttattaatgctgttgttg-gttgcagGTGTGACTTTGGAGGATCCCCGCACTGAAGATCTTAGCCAAGAAGTCAGAGGATTCATATTCTCTAAAATTCTG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G13400.1 (Glycine max), 3'ss of exon 5
agattttgttccatctttctagttagttgatt-tctttttcagttctat-tcatttttcagtggaggat-gctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
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--cgctaatccaattaaaatggttggatatttatatacatcaagagtagattaattgtgattaaatgattgattctctcattaacac-agctggggattgcagGTGTGACTTTGGAGGATCCTCGAACTGAAGATCTTAGCCAGGAAGTCAGAGGATTCATATTCTCTAAAATTCTG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G30230.1 (Glycine max), 3'ss of exon 5
agattttgttccatctttctagttagttgatttctttt--tcagttctattcatttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
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--atattgctaatccaattaaaatggttgcatatttataatcaagaaagattacttgtgattaaatgattgattctctcattagcacagttgaggattgcagGTGTGACTTTGGAGGATCCTCGAACTGAAGATCTTAGCCAGGAAGTCAGAGGATTCATATTCTCTAAAATTCTG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G71220.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------agattttg----ttccat-ctttctagttagttgatttctttttcagttctattcatttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
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gttagagttaagcattcatttattcattttgccacccaaatattgaaagttgaatatttttttattggtt--tttattccttatcttcattctgttagctatgaatttgctactctttaattgtttctgctatgagtttcagGTATCACTCTTGAAGATCCTAGGACTGAAGATCTTAGTCAAGATGTTAGGGGCTTTATATTCTCAAAAATCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcatttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
ttaaaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agattttgttccatctttctagttagttgatttctttttcagttctattcatttttcagtggaggatgctttccttaaaaatgtgaggtttgagttgcagGTGTCACGTTAGAGGATCCTCGGACTGAAGATCTTAGCCAAGAAGTTAGAGGGTTCATATTCTCTAAAATTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - ccatctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaat