Sequence
atgc intronic sequence ATGC exonic sequence...aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaagggttgtccattttgttgttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 22
aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaag-ggttgtccattttgtt--gttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
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-ctgcaga--aatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 38
aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaag-ggttgtccattttgtt--gttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
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-ctgcaga--aataaaacccctatatgtactacttttctttgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttgtttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAGTCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 25
-----------------------------------aatgcatatcaatcatcaaattacatctagttaccctttttgtagg---ctaaaggttgtgaccatttttgtaggctaa-----gggttgtccattttgttgttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
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gtaaacaaactgaaattcctccttccctttcctgaaactttaatcatagtttgcactgaaacaatgaactttcttgttacatctctaaaatgtatggttgactgtgctcgcttatagctaagttatgtgttatgtggttgcagTTACTTGCAGATGGTGTAATCCCAAATGAGTATGGCATCAATCCGCAACAAAAGCTTAAAATCGGTTCAAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 25
aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaagggttgtccattttgttgttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
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tccagatttaaactgttccattttttattgtacatctccgttttgcatttcgatcgtggactgtgttgattagggccacttatgtgttatgtggttgcagTTGCTTGCAGATGGTGTAATCCCAAATGAGTATGGGATCAATCCACAGCAAAAGCTCAAAATCGGTTCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaaaggttgtgaccatttttgtaggctaagggttgtccattttgttgttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
ggctaaa putative branch site (score: 3)
ttttgtt putative PPT
atttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaagggttgtccattttgttgttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
aatgcat
- - - - - - - atcaaat
- - - - - - - - - - - - - - - - -ccctttt
- - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggttgt