Sequence
atgc intronic sequence ATGC exonic sequence...atcaacggcctgatatctttaggttggttatattctcattagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017204_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 9
atcaacggcctgatatctttaggttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
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----------------------gttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgtttttttt--cagGGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAGTAGGAGGGATGATTTAGAGTCATTGGCGTACACCCTTATATTTCTAATA
upper sequence: GRMZM2G017204_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 9
atcaacggcctg-atatctttaggttggttatattctcattagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
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-------gtttgtatattttatgacttgtt----tgtcat-ggctatattttgcttttacatattg---atgataatatgcctttttgt--------gcagGGGAACAATAAGGTATGCTAGTGTACATGCACATTTAGGTAGGACTGGAAGTCGAAGGGATGACCTTGAGTCACTGGCATACACACTAGTATTTCTCATA
upper sequence: GRMZM2G017204_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------------------atcaacggcctgatatctttaggttggttatattctca-ttagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
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gtgaggttcttccccctgtcctgatctgtagt-tgccattcctgttttggctgttttggcggttgggagtgactgttttgcccctgagctatattttgattctgtgtaatttccgtacatgcagTGGAACTGTTCGCTATGCAAGTGTGCATGCACATTTGGGAAGGACTGGGAGTAGGAGGGACGACTTGGAATCACTGGCTTACACTTTGGTATTCCTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
cgttaac putative branch site (score: 3)
cctatcctcttgtttc CT-rich tract
attaataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaacggcctgatatctttaggttggttatattctcattagctgcagtttccattaataaatggtcttcgttaacctatcctcttgtttctttttgcagTGGAACAATTAGATATGCGAGTGTCCATGCCCATTTGGGGAGCACTGGTAGTAGGAGGGATGATTTAGAGTTACTGGCATACACCCTTATTTTCTTGATA
- - -cggcctg
- - - - - - - - - - - - - - - - - - - - -gctgcag