Sequence
atgc intronic sequence ATGC exonic sequence...attttcttgattaagtatacgtagattttctatctgcattattcttgatcttttcatatatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G02990.1 (Glycine max), 3'ss of exon 5
attttcttgattaagta--tacgtagattttct---atctgcattattcttg-atcttttcat-atatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
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-----catggttatatagcttcatagtcatgctaatattgaggttcttcctgcaatttatcatgacaagttctgaacatctacttgatgatttgtga--cattttagATTGGATATGAATTTGACTTCACGAGGGAGGCTAATGCGATGGAAAGGATTAGAAAGTTCTTGTATGAAAGTAACAAAAAGACTCCTGTTTTGGTGCCGC
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G13650.1 (Glycine max), 3'ss of exon 5
attttcttgattaagtatacgtagattttc-tatctgcattattcttg-atcttttcat-atatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
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-catgcttatatagcttcatagtcatgttaatattgaggttcttcctgcaatttatcatgacaagttctgaacatctacttgataatttgtga--cattttagATTGGATATGAATTTGACTTCACAAGGGAGGCTAATGCGATGCAAAGGATTAGAAAGTTCTTGTATGAAAATAACAAAAAGTCTCCTGTTTTGGTGCCGC
upper sequence: Vv17s0000g10260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G50330.2 (Arabidopsis thaliana), 3'ss of exon 4
attttcttgattaagta-tacgtagattttctatctgcattattcttgatcttttcatatatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
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--------------gtacttaattgatcttgttcctttgtgagacttatttttctc-caagtcactgaaaacta--------tgcgttttcttttttcaagATTGGTTATGAATTTGACTTCAAAAGGGAGGCCAATGCAATGGAAAGAATTCGATGTTTTCTTTATGAGAACAACAAAAAGTCTCCTGTTTTGGTACCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatcttttcatatatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
tcttgat putative branch site (score: 4)
ttttattttctttttc putative PPT
ttttcatatatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttcttgattaagtatacgtagattttctatctgcattattcttgatcttttcatatatttcttgaacataattttattttctttttcttcattcaagATTGGATATGAATTTGACTTCATTAGGGAGGCTGATGCAATGGAAAGAATAAAACGTTTTTTGTATGAGAATAACAAAAAGCGTCCTGTTTTGGTGCCAC
- - - - - - - - - - - - - - - - -ctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacataa