Sequence
atgc intronic sequence ATGC exonic sequencegttctacttatcatttagcatttcaatgaacatcagtagtttttgctggtattgttttgacatttgaatacaagtatttcagcattgctaatttcattctctacttcaaaccagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 8
------------------gttctactt--atcatttagcatttcaatgaacatcagtagtttttgctggtattgttttgacatttgaatacaagtatttcag---cattgctaatttcattctctacttcaaaccagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
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gtgctattaaccgtctttgctttttttgaatgatctaatactt---tggacatcaaca--ttttgttggcattgttatgttgtttgagaattatcacttcagtaccatcactttgttcatttccttactcaaaccagCCGAGTCCATTTTTCACGGAGCAATTGACAGCATTTGAAGTTTGGCTTGATCATGGCTCTGAAGACAAGAAACCCCCAGAACAGCTACCTATTGTTCTTC
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 9
gttctacttatcatttagcatttcaatgaacatcagtagtttttgctggtattgttttg-acatttgaatacaagtatttcagcattgctaat----ttcattctctacttcaaaccagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
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----------------------------------gtttgttttgttttgtatagtttcctgcaattgtatacgacggcgcttgttttgcttataaaacgtgttcctatcctttttctagCCAAGTCCGTTTTTTACTGAGCAACTGACAGCTTTTGAGGTGTGGCTTGATCATGGATCTGAGCATAAGAAGCCACCGGAGCAGTTACCTATTGTTCTTC
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 9
lower sequence: PP1S88_199V6.1 (Physcomitrella patens), 3'ss of exon 9
gttctacttatcatttagcatttcaatgaacatcagtagtttttgctggtattgttttgacatttgaatacaagtatttcagcattgctaatttcattctctacttcaaac-cagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
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------------atgttacggtt-aattctcacttctattttcatttagtcaagaaatgccgcctctgaacttgaaacttgcc--tgctgttcggtgtttgaaacccaattgcagCCAAGTCCATTTTTTACGGAACAGCTGACAGCTTTCGAGGTGTGGTTGGAGCATGGTTCGGAAGGGAAGAAGCCACCGGAACAACTTCCCATAGTTCTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatttgaatacaagtatttcagcattgctaatttcattctctacttcaaaccagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
tgctaat putative branch site (score: 2)
tttcattctctacttc CT-rich tract
taatttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctacttatcatttagcatttcaatgaacatcagtagtttttgctggtattgttttgacatttgaatacaagtatttcagcattgctaatttcattctctacttcaaaccagCCAAGTCCGTTTTTTACGGAACAACTGACGGCTTTCGAAGTGTGGCTTGATCATGGCTCCGAGGACAAGAAACCTCCTGAACAGTTACCCATAGTTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA