Sequence
atgc intronic sequence ATGC exonic sequence...tgctgggtggaatccattaataagatgtttttgaagcttgaaaattttagcagtgccttatgaaaatggcataatatgagttgtattggcttcttgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g70310.1 (Oryza sativa), 3'ss of exon 2
---tgctgggtggaatccattaataag-atgtttttgaagcttgaaaattttagcagtgccttatgaaaatggcataatatgagttgtattggcttct-tgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
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ttatgtcaaagtgttcttaatgccaactatgtctgactcgtttcatgttaatatctatagtttatcat-----ctcattaccagttttcttctcctttgtgacagATGGACAGAGCTTCTATCCTTGGTGATGCAATTGAGTACTTGAAGGAGCTCCTGCAGAGGATTAACGATCTTCACAATGAACTTGAGTCTGCTCCTAGCT
upper sequence: Vv17s0000g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G173534_T02 (Zea mays), 3'ss of exon 1
tgctgggtggaatccattaataagatgtttttgaagcttgaaaattttagcagtgcctta-tgaaaatggcataatatgagt-tgtattggcttct-tgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
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-acacgcttggacgcttcgccatgatagtac--atgtttggtattaatcaacttgctttagtaaatgttgattctcatcagcatttctcttctgctgtgacagATGGATAGGGCTTCTATCCTTGGCGACGCAATTGAGTATCTGAAGGAGCTCCTGCAGAGGATCAGCGATCTTCACAATGAACTTGAGTCAGCTCCGAGCT
upper sequence: Vv17s0000g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G38530.1 (Glycine max), 3'ss of exon 1
tgctgggtggaatccattaataagatgtttttgaagcttgaaaattttagcagtgccttatgaaaatggcataatatgagttgtattggcttcttg-acagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
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ttcactaataaatcaacatatat-atcatataatggcttcaatgctttaattgttactattggattttttgacatccaaaatgagtttgtttaaaatgaagATGGACAGGGCTTCAATCCTTGGGGATGCAATCGAGTATTTGAAGGAACTTCTGCAAAGGATCAGTGAGCTTCACAATGAATTGGAGTCAACACCAGCAG
upper sequence: Vv17s0000g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G17330.1 (Glycine max), 3'ss of exon 3
tgctgggtggaatccat--taataagatgtttttgaa--gcttgaaaattttagcagtgcct-tatgaaaatggcataatatgagttgtattggcttcttgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
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--ggggttagaatcaatcatagttaattagtgttggtttggtttgggctggaatctggatctgtctctggattctatgacattgtttggtttggttt---gatagATGGACAGGGCTTCAATTCTTGGGGATGCAATTGAGTATCTGAAGGAGCTTCTGCAAAGGATCAATGATCTGCATAACGAGTTGGAATCGACACCAGTGG
upper sequence: Vv17s0000g00330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G37750.1 (Glycine max), 3'ss of exon 4
tgctgggtggaatccattaataagatgtttttgaagcttgaaaattttagcagtgccttatgaaaatggcataatatgagttgtattggctt--cttgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
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-gttgcacactactagttaattgg-tgttggtttggtttggggtggaatctggatctgtctctgggttctatgacattgtttggtttggtttggtttgatagATGGACAGGGCTTCAATTCTTGGGGATGCAATTGAGTATCTGAAGGAGCTTCTGCAAAGGATCAATGATCTGCATAACGAATTGGAGTCGACGCCGGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagcagtgccttatgaaaatggcataatatgagttgtattggcttcttgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
cttctt CT-rich tract
ttatgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctgggtggaatccattaataagatgtttttgaagcttgaaaattttagcagtgccttatgaaaatggcataatatgagttgtattggcttcttgacagATGGATAGGGCTTCAATCCTTGGGGATGCAATTGAGTACTTGAAGGAACTTCTGCAAAGGATCAACAACCTCCATAATGAACTGGAGTCCACCCCTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - gggtgga
- - - - - - - - - aataaga
- - - - - - - - - - - - - - - -tgaagct
- - - - - - - - - - - - - - - - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa