Sequence
atgc intronic sequence ATGC exonic sequencegtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 9
--------gtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gtaagctcttatgatcctgtccactgttgtaccatgtgtactttccaaatgattgctaacatgctatttttcgt-cagATACTATGCAATTGCTACTCCAAGTGCTACCCAAAGGTTGCTTTTTGGTCTTCTCGAGGCACCACCATCATGGGCCCCAGATGCACTTGATGCAGCAGTA
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 8
------gtaagctccagttcact---gctatgcttaatccacttcaagatatttttttagtgggatcttttccttt--------cagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gttattctgaactcaatacctttctagttattttgttgttccttcaatgcattggcctgagcaaatttatatatctaaattatctagATATTATGCCATTGCGACTCCTAGTGCAACTCAAAGACTACTTCTTGGACTTTTAGAAGCACCCCCATCATGGGCTCCGGATGCCCTTGATGCTGCTGTG
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 8
-------------------------gtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gttattttgaacttaataccttatcttgttttttagtt-gttcatagagttcatctgcctgagaaaatatatatac----acctaacctttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTAGAAGCACCCCCATCATGGGCTCCAGATGCACTTGACGCTGCTGTG
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 1
------------------------gtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gttattttgaacttaatacctttcttgttttttagtt-gttcatagagttcatctgcctgacaaaatatatatac----acctaacatttgcagATATTATGCAATTGCTACTCCAAGTGCTACACAAAGACTTCTTCTTGGACTTCTTGAAGCACCCCCATCGTGGGCTCCAGATGCACTTGATGCTGCTGTG
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------------------------gtaagctccagttcactgctatgcttaatcc--acttcaagat-atttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gtattgtttctgggcttaccctttcaattagggtttattggtagtagtctgttgctagttttaaggttgtgcttcctcgaatccctagatcagaattgttttctcactttcctgttatactgtcagATACTATGCCATTGCAACTCCAAGTGCTACGCAGAGACTTCTTCTTGGACTCTTAGAAGCACCACCGTCGTGGGCTCCAGATGCACTTGATGCTGCTGTA
upper sequence: GRMZM2G107101_T05 (Zea mays), 3'ss of exon 9
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------------------------------------gtaagctccagttcactgctatgcttaatccacttcaagatatt---tttttagtgggatcttttcct--ttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
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gtgaatttccatacctttctctgtgggtaactttttatggaaaacatttcctaatttattctttcttccttttatcttttttccttttatcttttttccttttttggtggtggggttatctggtttagCTACTATGCAATTGCTACTCCAAGTGCCACACAACGACTTCTTCTAGGACTACTGGAAGCACCACCATCATGGGCTCCAGATGCTCTTGATGCTGCAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
gcttaat putative branch site (score: 4)
tcttttcctttc putative PPT
ttcaagatattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctccagttcactgctatgcttaatccacttcaagatatttttttagtgggatcttttcctttcagATACTATGCAATTGCTACACCAAGTGCTACACAGAGGTTGCTTTTTGGTCTTCTGGAAGCACCACCATCATGGGCTCCAGATGCACTTGATGCAGCAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG