Sequence
atgc intronic sequence ATGC exonic sequencegtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttctgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G051032_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 3'ss of exon 7
gtatacaatcttgttctcctatgcacacaaattggcatttaatc-tattcatttctgagtgattt-attttgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
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gtatactctcacataaacacat---cgaataatgatagttattcacatatttttctgagcaattttatactgt-ttagGTACTTCAAGAAGCAATTTGAATTGGCTGAAGCAGTAAAATTGCCAATGTTTCTTCACATGCGGGCTGCTGGTGAAGACTTCTGTGAGATTGTGTCAGAA
upper sequence: GRMZM2G051032_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os07g06410.5 (Oryza sativa), 3'ss of exon 5
gtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttctgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
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--gtatagtctcacacaagcacat-cgaagaatgatagttattcgcatattttctgagcaattttgtgctgtttagGTACTTCAAGAAGCAATTTGAATTGGCTGAAGCAGTAAAACTGCCAATGTTTCTTCACATGAGGGCTGCTGGTGAAGACTTCTGTGAGATTGTATCAGAA
upper sequence: GRMZM2G051032_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv08s0032g01170.t01 (Vitis vinifera), 3'ss of exon 7
-------------------------------gtatacaatcttgttctcctatg---------cacacaaattggcatttaatctatt-----catttctgagtgatttattt--tgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
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gtatgtggtttgttcagacaaaaattgtttggcatatgttcctttcttagtatgttttagtttctcattctttttctttcaatcaaatgaaggcatgtttgcactgttcgtttgttacattagGTACTTTGAGAAGCAATTTGAGTTAGCATATGCCATGAAGCTGCCTATGTTTCTGCATATGCGTGCTGCTGCTGAAGATTTTTGTGATATTTTAGGGCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcacacaaattggcatttaatctattcatttctgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacaatcttgttctcctatgcacacaaattggcatttaatctattcatttctgagtgatttattttgtattagGTACTTTGAGAAACAATTTGAGTTGTCTGAAGCAGTAAAACTGCCCATGTTTCTTCACATGCGTGCTGCTGGTGAAGACTTCTGTGAAATCATGACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA