Sequence
atgc intronic sequence ATGC exonic sequence...atatgtaggaactatcctagacacttttgttgccagctttatattctgctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 3'ss of exon 6
--atatgtaggaactatcctagacacttttgttgccagctttatattctgctttctag-atgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
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ctcaatgcctcaa-tagcatacatg-tgtggttagtaagtttttcatctatgttcaagtgcatgcat-atcacttgttttcagcattgatttccctcattcagGTGCTGTTTTTGATGTACCACTACTTCAATGCTAAAGAGATATACAATGCAATTCGTGTGTTCATTGCTGCATATGTCTGGATGACTGGATTTGGTAACT
upper sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 6
atatgtaggaacta-tcctagacacttttgt-tgccagctttatattctgctttctagatgttcatcatcggtggtctc--actctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
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----ggagaatttccttttatagactgtaatatactgggttcaacttctgtcctcctactagcagcctgcaacagtcttcagtattactttatctaatttccagGTGCTATTCTTGATGTACCATTACTTCAATGCTAAAGAAATCTACAATGCAATCCGTGTGTTCATCGCTGCATATGTCTGGATGACTGGATTTGGCAATT
upper sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G04070.1 (Glycine max), 3'ss of exon 6
atatgtaggaactatcctagacacttttgttgcca-gctttatattctg--ctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
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atcagatctgattattc-atctctttctgtacttacatttaatgttataaattcttcaaattttaatattccatattttaataatttgacatctgta--acagGTTTTGTTTTTGATGTATCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTATGGATGACTGGATTTGGGAACT
upper sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G36550.1 (Glycine max), 3'ss of exon 6
atatgtaggaactatcctagacacttttgttgcca-gctttatattctg--ctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
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agattttctgattattc-atctcttgctgtacttacatttaatgttataaattcctcaaattttaacattccatatttttatcatttgacatccgta--acagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
upper sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G06550.3 (Arabidopsis thaliana), 3'ss of exon 6
atatgtaggaactatcctagacacttttgttgccagctttatattctgctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
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---------gtttgtcattta-acttttat-gttagtgttttat-ctgccttttcatttgccgctacct-catcattgttttcttattctggtgttgtagGTCCTTTTCTTGATGTACCACTACTTTGCTGCTGCAGAGTACTATAATGCGATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
gtctcac putative branch site (score: 3)
tctcactctctttctt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgtaggaactatcctagacacttttgttgccagctttatattctgctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - -tgttgcc
- - - - - - - - - - - - - - - - - - - - - - - tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catcatc