Sequence
atgc intronic sequence ATGC exonic sequence...gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgctttaattatttatctgctttatcaataatttggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
lower sequence: GRMZM2G114934_T01 (Zea mays), 3'ss of exon 1
gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgcttta--attatttatctgctttatcaataattt--ggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
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--atctgtttgtcctccttgaacttctaagtg-gaactcattcgc-tcaatatatttgattataatcagttcacgtcaacaatattttttgttttactctgcagTCCGTGGTATGATGTACTATAGGAAAGCCCTTATGCTGCAGAGTTATTTGGAGAGGATACAATCTGAAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 32
gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgcttta-attatttatctgctttatcaataatttggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
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gacataatgagatatttgtctaaatctaatactatcaaagaaggtatctcc-tgctagatatttactacattttctgttctttgttgtttgaaatgctcagTTCGGGGGATGATGTATTATAGGAAAGCTCTTATGCTTCAGACCTATTTGGAGAGGACAACAGCAGGAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 34
--gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgctttaattatt-tatctgctttatcaataatttggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
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tacataatgagatatttgtctaaatcttataatatcaaagaagatatcta-ctgcaaaatatttactacatttgctgttct--ttgttgtctgaaatgcacagTTCGGGGGATGATGTATTATAGGAAAGCTCTTATGCTTCAGACCTATTTGGAGAGGACAACTGCTGGAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
lower sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 32
--------------------------------------------------------------gttgctgctatatagtagtatat-tagcaaatgtgtaagcaggcatatct-ctatgctttaat---tattta------tctgctttatcaataatttggtga--gattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG-------------------------------
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gtacaataaacgcatatctacacctcttttcttggggatcactgttcacttcatgatctcacattgcaagta-ataatgatatctctatcaataaagagaccttacttttctgctattccctcgcatatattttcagtgtttttctttacgtgttatctggcattctatctgcagTTCGTGGGATGATGTATTATAGGAAAGCCCTCATGCTTCAGTCTTATCTGGAAAGAAAAGCTGGCAATGACGCTACAGACGCTGAAGGATTTGAGTTATC
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 29
lower sequence: PP1S67_234V6.1 (Physcomitrella patens), 3'ss of exon 33
gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgctt-taattatttatctgctttatcaataatttggtgagattg-gcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
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cttgaactggtacgcttgtctgtta-tacatatgttcatcgtttttggtaagtgctaataattatggatacaattc-ttagtattatagaatttttttgcagTTCGTGGAATGATGTACTATAAAAGGGCTCTTTTACTGCAAGCACAACAAGAAGGAGCTTCTATGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctctatgctttaattatttatctgctttatcaataatttggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
ctttaat putative branch site (score: 4)
tttaattatttatctg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgctgctatatagtagtatattagcaaatgtgtaagcaggcatatctctatgctttaattatttatctgctttatcaataatttggtgagattggcagTTCGTGGAATGATGTACTATAGGAAAGCTCTTATGCTTCAGAGTTATTTGGAAAGGAATGCTGCTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - ctgctat
- - - - - - - - - - - - -gcaaatg
- - - - - - - - - - - - - - - - - - -gcaggca
- - - - - - - - - - - - - - - - - - - - - - - - -ctatgct