Sequence
atgc intronic sequence ATGC exonic sequence...ttttggttctttttggtcttggtttacttataatttggagggctatctccttagccgaaatgcacacattaaatctgataatgatttccttaaagttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------------------ttttggttctttttggtcttggtttacttataatttggagg------gctat-------ctccttagccgaaatgcacacattaaatctgataatgatttccttaa-----agttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
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gtctgtgttttgatacattttgtctttgcgttctgcatttcgattatatgcttgaaggagtctagacttattgactataggtctatagctaactatgcttaggaaactctccactatgccatggttttttagagggttctttcttttgtgttatactcactgtttctataccatgcaaatcagATTTCTCCACGACAAGGTCTTCTACGTGTGCGTGAATTCACATTAGCCGAGATTGAGCACTTTGTGGATCCTGAGGATAAATCTCACCCAAAATTTGTTG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G171688_T01 (Zea mays), 3'ss of exon 3
ttttggttctttttggtcttggt--ttacttataatttggagggctatctccttag---ccga--aatgcacacattaaatctgataatgatttccttaaagttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
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--taaaatgggaatggtcacattaattaccttta-tctgtaagcctgtcaccataaagccctactaaaatactctctcga-ctgaagcaaattttttttg---ctagATATCTCCCCGTCAAGGCCTTTTGAGAGTCCGTGAGTTTACTTTAGCGGAAATTGAGCACTTTGTGGACCCAGAGGACAAATCCCATCCAAAGTTTGGTG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G53620.1 (Glycine max), 3'ss of exon 3
ttttggttctttttggtcttggtttacttataatttggagggctatctccttagccgaaatgcacacattaaatctgataatgatttccttaaagttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG-----------------------------------------
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-------------------------------------------------------------------------------------------------------------------gtcttcttgagagtgtgagagttcacattggcggagagTGAGCACTTTGTTGACCCTCAAGATAAGTCTCATCCCAAGTACCATCAAGTTGCTGACTTGAAGTTCTTAATGTTCCCGAGGGTTGAT
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 3
-ttttggttctttttggtcttggtttacttataatttggagggctatctccttagccgaaatgc---acacattaaatctga----taatgatttccttaaagttc--agATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
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gtaatgtattactttg--cttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcagATATCTCCTCGACAAGGGCTTCTTAGAGTTCGTGAATTCACGCTGGCAGAGATTGAGCACTTCGTTGATCCTGAGAATAAGTCACATCCTAAGTTCTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctccttagccgaaatgcacacattaaatctgataatgatttccttaaagttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
atctgat putative branch site (score: 4)
tttcctt putative PPT
attaaatctgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttggttctttttggtcttggtttacttataatttggagggctatctccttagccgaaatgcacacattaaatctgataatgatttccttaaagttcagATATCTCCCCGCCAAGGCCTTTTGAGAGTTCGCGAGTTCACATTGGCAGAGATTGAGTACTTTGTTGATCCTGAAGACAAATCTCACCCCAAATATTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - -tggaggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacat