Sequence
atgc intronic sequence ATGC exonic sequence...ttggtaatattgagtagcacttatatcatctttgctagatttctatcgcacctgaagtttgagactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os09g12550.1 (Oryza sativa), 3'ss of exon 9
-----------ttggtaatattgagtagcacttatatcatctttgctagatttc-tatcgcacctgaagtttgagactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTA---TGGTGGCCATGGAAGTCAGTTGCAT
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atttatctgaattggtgcatttgagttgcgcttttatcatggttgataaattttgtgctgctgctgagatttgagactc-------tgaactt---attaa--ttgctgcagTGAAATGGGCACCCATTTTTCCCCCTGTGGGCGTTTTTTGGTGGCTTGTGTTGCATGCTTACTGCCTCAAACAGAAGTTGGTGAGCATGTAAGCCAATCG---
upper sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA03G32620.2 (Glycine max), 3'ss of exon 8
---ttggtaatattgagtagcacttatatcatctttgctagatttctatcgcacctgaagtttgagactcatttacttgaagtttctgttaaattt----tctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAG-TTGCAT
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catttggcattattacatcacaggcattata-cttttttggattgaagtcagattgtatacttaa---tcagttagctga---ttcaatggaatttgccctttgcagTGAAATGGGTGCTCATTTTTCACCATGTGGTAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATATAGAAGCAGATCCAGGATTACAAACTCCA-
upper sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv05s0077g00140.t01 (Vitis vinifera), 3'ss of exon 8
--ttggtaatattgagtagcacttatatcatctttgctagatttctatcgca-cctgaagtttg-agactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
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tgatgttgaagtcaataagcttccccatctggtatttcatttttatattatggtccagactgtgtagtattataggctacatgtttttg----aatatttgcagTGAAATGGGAGCCCATTTTTCGCCCTGTGGGAGATTTTTGGCAGCCTGTGTTGCATGCATGCTCCCTCATTTGGAAGCTGATCCTGGATCACAGGGCCAG
upper sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
ttggtaatattgagta---gcactt-atatcatctttgctagatttctatcgcacctgaagtttgagactcatttacttgaa-gtttctgtta-aatttt--ctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
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------atatcaagtatttgcatttcataaaatttctgcctagc--ctgtcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgcacctgaagtttgagactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
ttttctgc CT-rich tract
tttctgttaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggtaatattgagtagcacttatatcatctttgctagatttctatcgcacctgaagtttgagactcatttacttgaagtttctgttaaattttctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG