Sequence
atgc intronic sequence ATGC exonic sequence...taggagaatagtggatgtatagtatggtgctaaaataatgtattttctccgtaacaatatttgggctttgcaactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 14
--taggagaatagtggatgtatagtatggtgctaaaataatgta--ttttctccgtaacaatatttgggctttgcaactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTC---TCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
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tcaaggcgtcaagtgtttgtgactggaggtagtattgttttctaagtttttggtgtaccttctttttggtactgtaaatgatg---ctagtttgtccat-gcagCTTGCAGAGTCAGCTAAGTTGCAGTTTTCATGCCGGGACTACAGTGATCATCTTGCACTTGTTCGTGCATATGATGGATGGAGGGAGGCTGAAAGAGACC---
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA09G18490.1 (Glycine max), 3'ss of exon 9
taggagaatagtggatgtatagtatggtgctaaa-ataatgtattttctccgtaacaatatttgggctttgcaactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
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tgacagtattgtagcc-cattttctttttcaagttattgcttgatgacttcattatgatgattcatttatttatttgatttatctagtttatttatcaaagCTTGCAGAGGCAGCAAAGTCTCAATTTTCCCAAGATTACAGTGACCATCTTGCCATTGTGAGGGCCTATGAGGGATGGAAGGATGCTGAAAAAGACCTTA
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 17
taggagaatagtggatgtatagtatggtgctaaaataatgtattttctccgtaacaatatttgggctttgc-aactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
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-agcagtatatgtaatggcccatttgttttccactcattgggtgatggtcttgtcttgaactgaatttcattatttgacagttcaaagttcttctttgtagCTTGCAGAGGAAGCAAAGTCTCAATTCTGTGGTGCATACAGTGATCACCTTGCACTTGTAAGGGCATACGAAGGTTGGAGAGATGCTGAAATGGACCTTG
upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT2G01130.1 (Arabidopsis thaliana), 3'ss of exon 14
taggagaa-tagtggatgtatagtatggtgctaaaataatgtattttctccgtaacaatatttgggctttgcaac-taatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
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aaagagatcttgtcttgaaatcagatggta-tgaagtgttgtgaattctc-gtgtcttctgaaagaccttagaatatgatgtttcgtttttaactttcccagCTCGCAGAAGCCGCAAAGTCCCAGTTTTCACGTGATCACAGTGATCATCTTGCACTTGTTCGGGCATATGAGGGGTGGAAAAAAGCTGAGGAAGAGTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccgtaacaatatttgggctttgcaactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
aactaat putative branch site (score: 2)
tctggtttcttcttt putative PPT
taacaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggagaatagtggatgtatagtatggtgctaaaataatgtattttctccgtaacaatatttgggctttgcaactaatgtatctggtttcttctttgtagCTTGCAGAGGCTGCAAAAGCTCAATTTTCTCATGACTACAGTGACCATCTTGCACTTGTTCGGGCTTATGAGGGCTGGAAAGATGCTGAAAAGGACCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
-aggagaa
- - - - - gtggatg
- - - - - - - - - - - - tggtgct
- - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - gtaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaacta