Sequence
atgc intronic sequence ATGC exonic sequencegttctattttgtcattgatgaaacttgtctacttgcaaaatgaaaatcaatttgctctaaccatcaatgctattttatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G026560_T01 (Zea mays), 3'ss of exon 16
gttctattttgtcattgatgaaacttgtctacttgcaaaatgaaaatcaatttgctctaaccatcaatgctattttatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
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---gtgttttctcctcca---aatgtttctgaatgtgatttaaattttttttcctgacatatgttcctttcattcgatgtagGTTCAACTTCAACAAAAGATCAAGCAAGAGTCTGAACAGTTTAGGTCTTGGAAGGCTGCCCGTGAAAAGGAAGTACTTCAG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA04G10080.1 (Glycine max), 3'ss of exon 15
--gttctattttgtcattgatgaaacttgtctacttgcaaaatgaaaatcaatttgctctaaccatcaatgctattttatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
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gtgcaatatttgcttgcagtaactagcagaaaacttgtattatactctttggcac-ttctcatagttttttttttcctctttagGTTCAACTTCAAAATAAGATTAAACAGGAATCCGAACAATTTAGGTTATGGAAAGCTTCACGCGAAAAAGAAGTTCTCCAG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA02G37800.1 (Glycine max), 3'ss of exon 16
gttctattttgtcattgatgaaacttgtc-tacttg---caaaatgaaaa--------tcaatttgctct--------aaccatcaatgctattttatct-----agGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
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gtgaaatgatcctactaatggaacttcttatactcagtttgaagcagaaagctgtgttttgtttttctttcccgttagagtcatgactgacaatttttcttcttcagGTTCAATTGCAACATAAAATTAAACAGGAATCAGAACAATTCAGGTTATGGAAAGCTTCACGCGAGAAAGAAGTTCTCCAG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA14G36030.1 (Glycine max), 3'ss of exon 16
gttctattttgtcattgatgaaacttgtc-tacttg---caaaatgaaaatcaat------ttgctct-------------aaccatcaatgctattttatct-----agGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
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gtgaaacgatcctactaatggaacttgttatactcaatttgaagcagaaagctgtgttttgttgttctttccctttagaagagtcatgactgacaatttatcttcttcagGTTCAATTGCAACATAAAATTAAACAGGAATCAGAACAATTCAGGTTATGGAAAGCTTCACGCGAGAAAGAAGTTCTCCAG
upper sequence: Vv18s0001g07550.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: PP1S42_71V6.1 (Physcomitrella patens), 3'ss of exon 16
------------------------------------------------------------------------------------------------gttctattttg----tcattgatgaaacttgtctacttgcaaaatgaaaatcaatttgct--ctaaccatcaatgctattt-tatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
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gttcgtgatccccgcgtcagtggtccttttatgtaattcttgacatgacctgggaaatggtttcaaagatgctgagtcattgccgcctttcaagccatttatcagtgaaattcatcagtgaaatttatcagtgatcgccctgcacgtttatcttgtagctgagcatttgtaatgttaaccttcagGTTCAAATACAGCAAAAGATGAAGCAAGAATCTGAACAGTTTCGGTTGTGGAAAGCATCCAGAGAGAAAGAGGTTCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctacttgcaaaatgaaaatcaatttgctctaaccatcaatgctattttatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
ctctaac putative branch site (score: 2)
ttttatct putative PPT
aaaatgaaaatcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctattttgtcattgatgaaacttgtctacttgcaaaatgaaaatcaatttgctctaaccatcaatgctattttatctagGTTCAATTGCAACATAAGATCAAGCAAGAATCTGAGCAGTTTAGGTTATGGAAGGCATCGCGGGAAAAAGAAGTTCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT