Sequence
atgc intronic sequence ATGC exonic sequencegtagtatataatttctcttcattctactatgttttcaagactatttcagtctgacatggaaaagaactcattgccaaagctacgagtgctcattgcagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G081380_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g33080.1 (Oryza sativa), 3'ss of exon 5
gtagtatataatttctcttcattctactatgttttcaagactatttcagtctgacatgg-aaaagaactcattgccaaagctacgagtgctcattgcagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
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gtagttcatgattcatatttattctaatacactggt--gactgattttgtgtcagatgggaaaataactcaaattcata--tgtctgtgctttttgcagGAGATGGAGGAGCTTATGAGCTTATCTCCTGAAAAAATATTACTCAGATGGATGAACTTTCAATTGAAGAAAGGAGGTTTCCAAAGAACAGTAACAAATT
upper sequence: GRMZM2G081380_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s0333g00010.t01 (Vitis vinifera), 3'ss of exon 2
gtagtatata-atttctcttcatt-----ctactatgttttcaagactatttca----gtctgacatggaaaagaact--cattgccaaagctacgagtgctc-----attg-cagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
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---gtgaagatatttctcccaattagaagttattggttcttagctactggcttaaagggttttatatgaataatttctagtataaacatgatttcaattatattgaaaatcaacagGATGTGGAGGAGCTGATGAGTCTACCACCAGAGAAGATCTTACTTCGGTGGATGAATTTTCAACTGAAGAAAGCAGGATATAAGAGAATAGTTACAAACT
upper sequence: GRMZM2G081380_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s1365g00010.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtagtatataatttctcttcattctactatgttttcaagactatttcagtctgacatggaaaa-gaactcattgccaaagctacgagtgctcattgcagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
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gtgaagatatttctcccaattagaagttattggttcttag-ctact-cgcttaaagggttttatatgaataatttctagtataaacatgatttcaattatattgaaaatca--acagGATGTGGAGGAGCTGATGAGTCTACCACCAGAGAAGATCTTACTTCGGTGGATGAATTTTCAACTGAAGAAAGCAGGATATAAGAGAATAGTTACAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcagtctgacatggaaaagaactcattgccaaagctacgagtgctcattgcagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
gtctgac putative branch site (score: 3)
aaaagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtatataatttctcttcattctactatgttttcaagactatttcagtctgacatggaaaagaactcattgccaaagctacgagtgctcattgcagGAGATGGAGGAGCTTATGAGTTTATCTCCTGAAAAGATTCTACTAAGGTGGATGAACTTTCAACTGAAGAAAGCAGGTTTCCAGAAAAGAGTAACAAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA