Sequence
atgc intronic sequence ATGC exonic sequence...tctctttctctctctccacagaatcactctgatactaaagaattcattgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G29760.1 (Glycine max), 3'ss of exon 9
--tctctttctctctctccacagaatcactctgatactaaagaattcattgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
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aagctgctttaaactgtgaatcatctttaattcctgtttcgacatcaattagt-cattatcagtagttgttgcacttatgtttaaatctt-ttatattttagAATATTAATGTTTTGAATGGGATAGCATGGGATGGTGAGCAAAAGCGGATATTTG
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G24430.1 (Glycine max), 3'ss of exon 6
--tctctttctctctctccacagaatca-ctctgatactaaagaattcattgtttctttctcctt--cacttatt-cactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
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aagctgttttaaacttt-----gaatcatcttttttaattcctgtttcaagatcaaatagtcattagtagttgttgcacttatgtttagctctt-ttatattttagGATATTGATGTTTTGAATGGGATAGCTTGGGATGGTGAGCAGAAGCGGATATTTG
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G25720.1 (Arabidopsis thaliana), 3'ss of exon 9
-tctctttctctctctccacagaatcact--ctgatactaaagaattcattgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
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gtgagttaaaatatggaaaaaagttcacaggttgtctcttaataagtcatc------tttaaaactattttttcccttaccttaatcttgca-tgcactatagGGTATTGATGTTTTGAATGGCATAGCATGGGACAGTGACAAGCAACGCCTCTTTG
upper sequence: Vv16s0050g01140.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G25720.2 (Arabidopsis thaliana), 3'ss of exon 9
-tctctttctctctctccacagaatcac--tctgatactaaagaattcattgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG---------------------------------------------
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gtgagttaaaatatggaaaaaagttcacaggttgtctcttaataagtcatc------tttaaaactattttttcccttaccttaatcttgca-tgcactatagGGTATTGATGTTTTGAATGGCATAGCATGGGACAGTGACAAGCAACGCCTCTTTGGTAATAAATCTTGTTATCATCCCCTCTAGGCTTGATTACTCGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
cactcac putative branch site (score: 2)
tttcactgtcttcc putative PPT
acttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctctttctctctctccacagaatcactctgatactaaagaattcattgtttctttctccttcacttattcactcacacaggaatttcactgtcttccagGACATTGATGTTTTGAATGGCATAGCATGGGATAGTGAGAAAAACCGCCTTTTTG
- - - -ctctctc
- - - - - - - - cacagaa
- - - - - - - - - - - - - - ctgatac
- - - - - - - - - - - - - - - - - -taaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcacaca