Sequence
atgc intronic sequence ATGC exonic sequence...cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g07670.1 (Oryza sativa), 3'ss of exon 2
-cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtg-aaatatgta--tgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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ttcttttctcaaatgcattgcaatgtattagtgttt-gtagaatttacatg---aatataaatgacaccaactgtttttccatacatggaattgtattttgcagCCACTACCTTGACGAGTTGGCATCTTCTTGTCACATTTTGCTCCCTCCATGTAGCATTATGGATGAAGTTCTTCGAGCACAAGCCTTTCGACTCGAGAAC
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 2
cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgact----tcta-atatctgtgaaatatgtatgtcttt---tgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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--------ttatttccatgatatatgcaaatttgagctttcatgtttacattttaatgtactgtctgagatttacaagtttttgaaatttgtgctttttgatatgcagCTACAACTTTGACCAGCTGGCATCTGCTTGTCACATTTTGTTCCCTTCATGTGGCGCTCAAAATGAGATTCTTTGAGCACAAACCTTTTGAGCAGAAAGC
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 3
cagagtactagatcttatattatcaacatgtatg-tagtgaagtatgta---agtctgat--ttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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------tctttaccatgggtgaactccattcatgataacagtttatgcatggaatctcatagtctatctgtgtgtaatcatttattactttatattgaacttacagCAACTACTTTGACAAGCTGGCATCTTTTGGTGACATTTTGTTCACTTCATGTGGCATTATGGATGAAGTTTTTTGAGCACAAGCCTTTTGATCCACGAGC
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 2
cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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cattttgatgtctgtgttgccataacagcttttatgtcatcttatgcaattttgatctcataagctatctgttcttactcttgttattttgtatgtacagCGACTACTTTGACAAGTTGGCATCTTTTGGTCACATTTTGTTCCCTTCATGTGGCATTATGGATGAAGATGTTCGAACACAAGCCTTTTGATCCACGAGC
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 3
cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctg---tgaaatatgta--tgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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---agtgaaaacttttcctccattcatatatttgctcttttcacagctgctttg--ttaatttagtcttgagttctcattttaactacccaactgtcgattgcagCCACAACTTTAACTAGCTGGCATCTTCTGGTCACATTTTGTTCTCTTCATGTGGCACTATGGATGAAATTATTTGAGCACAAGCCTTTTGACGCTAGAGC
upper sequence: GRMZM2G063253_T09 (Zea mays), 3'ss of exon 1
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 3
cagagtactagatcttatattatcaacatgtatg-tagtgaagtatgtaagtctgatttaaatg-acttctaatatctgtgaaatatgtatgtcttt-tgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
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---gctattaggcggtaacaaagcactaactataatgattgtatactttgataagatttgcttctacttgtggcattatcttctgtcatccgtctttgtacagCTACTACATTGACAAGCTGGCATCTTCTGGTCACTTTCTGTTCTCTTCATGTGGCTCTATGGATGAAATTGTTTGAACACAAACCATTTGATGCAAAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
ttctaat putative branch site (score: 2)
tgtctttt putative PPT
tgatttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagagtactagatcttatattatcaacatgtatgtagtgaagtatgtaagtctgatttaaatgacttctaatatctgtgaaatatgtatgtcttttgcagCCACTACCTTGACGAGCTGGCATCTGCTGGTTACATTCTGCTCCCTTCATGTAGCATTATGGATGAAGTTCTTTGAGCATAAGCCTTTTGATTCAAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
