Sequence
atgc intronic sequence ATGC exonic sequencegtatgatatttgaatactacacaattttcctttgcttatactgaattctaaaatgtcttatgactatagtactaaatgtttattgcttgttcgtgtttgtttgtttgattatctgtttatgcatttctttttttaacagATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02430.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G41920.1 (Glycine max), 3'ss of exon 7
gtatgatatttgaatactacacaattttcctttgcttatactgaattctaaaatgtcttatgactatagtactaaatgtttattgcttgttcgtgtttgtttgtttgattatctgtttatgcatttctttttttaacagATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC------
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gtatgatattaaaat--tggttactttttgtttgatta-----------------------gaatgtggtaatgaaa--ttaccactgtttcagataaattcactactttatg-atttatatgtt-------------gattcagATACATAGAAGACCAAGAATTGGAGGCCATCGACTAATAGGGATGAGAACTCAACCTCAAAAACTGACTAGAAAATGTGAAGTCACAGCAATTCTTGTTC
upper sequence: Vv13s0019g02430.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G34560.1 (Glycine max), 3'ss of exon 11
gtatgatatttgaatactacacaattttcctttgcttatactgaattctaaaatgtcttatgactatagtactaaatgtttattgctt--gttcgtgtttgtttgtttgat-tatctgtttatgcatttctttttttaacagATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC------
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----------------------------------------gtaagttatttaattttttttc-ttgttttatgaagccttcatgaaccaagttataaattatctgtcaggtatttccactaatttatgatcttctgttgt---ttcagGTATATAGATGGCCAAGAATTGGAGGCCATCGATTAATAAGCATGAGATCTCAAGCTCAAAGGCTGCCTAGAAAATGTGAAGTTACAGCTATTCTTGTTC
upper sequence: Vv13s0019g02430.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G07060.1 (Glycine max), 3'ss of exon 8
gtatgatatttgaatactacacaattttcctttgcttatactgaattctaaaatgtcttatgactatagtactaaatgtttattgcttg-ttcgtgtttgtttgtttgatt---atctgtttatgcatttctttttttaaca----gATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC------
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---------------------------------------------------------gtatgatattaaaactgtttactttttgtttgattagaatgtggtaatgaaattcagataaattcactactctttatgatttatatgttgattcagATACATAGAAGACCAAGAATTGGAGGCCATCGACTAATCGGGATGCGAACTCAACCTCAAAAACTGACTAGAAAATGTGAAGTTACAGCAATTCTTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttgttcgtgtttgtttgtttgattatctgtttatgcatttctttttttaacagATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC
gtttgat putative branch site (score: 5)
tgcatttcttttttt putative PPT
tttatgcatttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatatttgaatactacacaattttcctttgcttatactgaattctaaaatgtcttatgactatagtactaaatgtttattgcttgttcgtgtttgtttgtttgattatctgtttatgcatttctttttttaacagATCCAAGTACTTAGAAGGCCCAGACTTGCAGGACAGCGACTAGTAGGAATGAGATCACAACCTCAAAAGCTGACTCGAAAATGTGAAGTTACAGCTATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA