Sequence
atgc intronic sequence ATGC exonic sequencegtaatttgttgttcatcactttcacttaaattttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 7
gtaatttgttgttcatcactttcacttaaattttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgt-gtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
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----------------------------aactattcatgacaatatatattcattgatttataa---acaaataattaactatg-tttcttaagaccataagtaacacctcagtttctatcgtatttaccagTGAACTTCCAGAGTTCTTGGGTGGTACTTGTACTTGTGCAGATAAAGGTGGTTGTATGCTTTCTGACAAGGGTCCATGGAATGACCCAGATATCTTGAAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G01230.1 (Glycine max), 3'ss of exon 6
gtaatttgttgttcatcactttcacttaaattttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
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---------------------actcttcatgaccataaatattcattgatttataaacaaaaaattaactat--gttccttaagaccataagtaacacctca-------gttctctattg-tatttaccagTGAACTTCCAGAGTTCTTGGGTGGTACTTGTACTTGTGCAGATAAAGGTGGTTGTATGCTTTCTGACAAGGGTCCATGGAATGACCCAGATATCTTGAAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 6
gtaatttgttgttcatcactttcacttaa-attttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
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-----------------atgttctttgaatatgttgctat-atatgtga-ctgaataagtgaa----taacattactacttaggactatact-taacgacttgt----tcatatttat----tatttaccagTGAACTTCCAGAGTTCTTGGGTGGTACTTGTACCTGTGCAGACAAAGGTGGCTGTATGCTTTCAGACAAGGGACCATGGAATGACATTGAAATCTTGAAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaatttgttgttcatcactttcacttaaattttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
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-------------------------gtgagctctgcaaaaagtttctgcatgaacactcaaaagattagtatt-----------------tctcgaatgacaga-cttctcatttttct---ttgtatcagTGAGCTGCCTGAGTTCTTGGGAGGTTCTTGTACTTGTGCTGACAATGGGGGTTGCATGCGCTCGGACAAAGGACCATGGAACAATCCAGATATTATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
ttctgat putative branch site (score: 3)
tttttctgattttt CT-rich tract
tttttctgatttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttgttgttcatcactttcacttaaattttgctaggatttctagtctccatggtctaaattttgctattgattctttgagctttcctatagagtctcacagcatcgtgtttttctgatttttaacagTGAGCTGCCAGAGTTTTTGGGTGGTACTTGTACTTGTGCTGATAAAGGTGGTTGTATGCGTTCGGATAAGGGCCCCTGGAATGATCCAGAAATACTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG