Sequence
atgc intronic sequence ATGC exonic sequence...cctggatgggccgggattaagccatctgattcagtgtactctattgagttacctgatagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os08g14770.1 (Oryza sativa), 3'ss of exon 9
cctggatgggccgggattaagccatctgattcagtgtactctattgagttacctga-tagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
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ttagggtgggatgtacttcaatagtctaatttggttgcctcttttaatttgtgtaaactctaatataggattttaacatcattaactcttat-tcatgcagTAATACAAGGTGCAGGGGGAATGCATTTGATAGATCCCCTTTTCCAGAGATTACTTGTCAAAGAGTGTAAAAATCGAAAAATTCCTGTCATATTTGATGA
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G102156_T02 (Zea mays), 3'ss of exon 9
-------------------------------------------------------cctggatgggccgggattaagccatctgattc-agtgt---actctattgagttacctgatagtgtttccaagta--tctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
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gtaaaaaagtttcactctttgagtttcttgggattttttttgctcttcagcctttagtatgtaactttgtatactatcatttcatactaacgtctgacaaaatctcagtacttttccatgccatttattggttcaacctcattaacccattt-ttgtgtagTAATACAAGGTGCAGGTGGAATGCTCATGATAGATCCTCTTTTCCAGCGAGTACTTGTCAGTGAGTGTAGAAGCCGAAAAATACCTGTCATATTTGATGA
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G01170.1 (Glycine max), 3'ss of exon 10
cctggatgggccgggattaagccatctgattcagtgtactctattgagtt--acctgatagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
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tctaaaaattgtttcagtg-gctctctggat-attctaattaacttattttcaccttttctggacattgatcatctcatttggggcctgagctgttatgtagTTATCCAAGGTGCTGGTGGAATGCATATGGTTGATCCACTTTTTCAGCGTGTGCTTGTTAATGAGTGTCGGAGTAGAAAAATTCCAGTAATCTTTGATGA
upper sequence: Vv11s0052g01390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G57590.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------cctggatgggccgggatta-agccatctgattcagtgtactctattgagttacctga--tagtgtttccaagtatctacttcaataatgtttctgttt----ttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
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gtacactcgccagtatgacttcacatagtttacgtatgtaacttaactatattcagtaagtttagcatccttggtttatctagctagattgctatatgcaaactactcttttattaagttggcggttttatctgcagTAATTCATGGTGCTGGGGGAATGCATATGGTTGATCCGCTTTTCCAACGAGTTTTGGTGAATGAGTGCCGGAATAGAAAAATTCCAGTCATTTTCGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagttacctgatagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
acctgat putative branch site (score: 4)
tgtttctgtttttc putative PPT
aataatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctggatgggccgggattaagccatctgattcagtgtactctattgagttacctgatagtgtttccaagtatctacttcaataatgtttctgtttttcagTTGTACATGGTTCTGGTGGAATGCATATGATTGATCCACTTTTTCAAAGAGTACTTGTGAATGAGTGTCGAAGCCGAAAAATTCCTGTTATCTTTGATGA
- -ggatggg
- - - - - - - - - - gccatct
- - - - - - - - - - - - - - - - - - - - - - - - - -cctgata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagta