Sequence
atgc intronic sequence ATGC exonic sequencegtatagaacttctttgctctctcatgcttcatatcaaaaaacaagaattgttagccataaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAGTCGAGATATTTCTATGAATTGAGGGAGCATAAATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G42010.1 (Glycine max), 3'ss of exon 4
------gtatagaacttcttt---gctctctca-tgcttcatatcaaaaaacaagaattgttagcca-taaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAGTCGAGATATTTCTATGAATTGAGGGAGCATAAATA-
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gtatagctatttatcctcttctaaatagtttcactgtttcacaacatcaagtctgaacagctagaaagtatacaaagaagctata----agaactaacagaaaataatctaatgttgtct-taattgcagGTCTTCAGTGGAAGAGACACTACAATGATTTGAAGAAGATAGCTGAATCTTTCCGGGTTGTATAACTAAAAT-CTTCTGTGAACCCAGAGCTAATTGAAAT
upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G12760.1 (Glycine max), 3'ss of exon 4
------gtatagaacttctt-----tgctctctcatgcttcatatcaaaaaacaagaattgttagcca-taaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAGTCGAGATATTTCTATGAATTGAGGGAGCATAAATA-
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gtatagctatttatcctcttctaaatagtttcacttttttcacatcatcaagactgaacagctagaaagtatacaaagaagctata----agaactaacagaaaataatc-taattttttcttaattgcagGTCTTCAGTGGAAGAGACACTACGATGATTTGAAGAAGATAGCTGAATCTTTTCGGGTTGTATAACTAGAAT-CTTCTGCGAACCCAGAGATAATTGAAAT
upper sequence: Vv18s0001g15360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G77090.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatagaacttctttgctctctcatgcttcatatcaaaaaacaagaattgttagccataaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAG--TCGAGATATTTCTATGAATTGAGGGAGCATAAATA
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--gtaaggcaaaacctctcttcta-gtcagagatttaaagaca-gagcaaaca-ccttttgtttggtttgta---cacatagttaattgct-ctgcttatg-----tttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAGTCGAGATATTTCTATGAATTGAGGGAGCATAAATA
aactaat putative branch site (score: 2)
cttatttct putative PPT
tataactaattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagaacttctttgctctctcatgcttcatatcaaaaaacaagaattgttagccataaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAGTCGAGATATTTCTATGAATTGAGGGAGCATAAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA