Sequence
atgc intronic sequence ATGC exonic sequence...ctgtccggcagatatgcaaaagaagtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttttgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G455171_T01 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 3'ss of exon 7
ctgtccggcagatatgcaaaagaagtatacaatcttgttctcctatgcacacaaattggcatttaatc-tattcatttttgagtgattt-attttgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
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------------------------gtatactctcacataaacacat---cgaataatgatagttattcacatatttttctgagcaattttatactgt-ttagGTACTTCAAGAAGCAATTTGAATTGGCTGAAGCAGTAAAATTGCCAATGTTTCTTCACATGCGGGCTGCTGGTGAAGACTTCTGTGAGATTGTGTCAGAA
upper sequence: GRMZM2G455171_T01 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os07g06410.5 (Oryza sativa), 3'ss of exon 5
ctgtccggcagatatgcaaaagaagtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttttgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
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--------------------------gtatagtctcacacaagcacat-cgaagaatgatagttattcgcatattttctgagcaattttgtgctgtttagGTACTTCAAGAAGCAATTTGAATTGGCTGAAGCAGTAAAACTGCCAATGTTTCTTCACATGAGGGCTGCTGGTGAAGACTTCTGTGAGATTGTATCAGAA
upper sequence: GRMZM2G455171_T01 (Zea mays), 3'ss of exon 16
lower sequence: Vv08s0032g01170.t01 (Vitis vinifera), 3'ss of exon 7
------------------------ctgtccggcagatatgcaaaaga-agtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttttgagtgatttattt--tgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
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gtatgtggtttgttcagacaaaaattgtttggcatatgttcctttcttagtat---gttttagtttctcattctttttctttca-atcaaatgaaggcatgtttgcactgttcgtttgttacattagGTACTTTGAGAAGCAATTTGAGTTAGCATATGCCATGAAGCTGCCTATGTTTCTGCATATGCGTGCTGCTGCTGAAGATTTTTGTGATATTTTAGGGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcacacaaattggcatttaatctattcatttttgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
atttaat putative branch site (score: 4)
tttatttt putative PPT
atttaatctattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtccggcagatatgcaaaagaagtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttttgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGGCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGTTGGTGAAGACTTATGTGAAATCATGACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA