Sequence
atgc intronic sequence ATGC exonic sequence...tgataaagtaatttataggaattagtgtagaatgcgactggaattggttcagaaaatgttcttgacaaatctaatatcttttcatggtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G082527_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------tgataaagtaatttataggaattagtgtag-aatgcgactggaattggttcagaaaat-gttcttgacaaatctaatatcttttcatggtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
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gcaagtctcaaaattttcagagcaacttggtagtcactgatctccatgtcatctcatgttagcttgca--acttactacagtaaagttttttccgctgtttcacaccgtcgtctataagacatcaatggtaatcttgta-tgatcttctgcagGTCTTGAATGAGGACCTACGGCTTGTGCTTGGGCAGCAAGAGCGGATGATAAATGGCGCGAACGTATGGAACTGGCCAGTGTCATATGACAAGCTTGGTA
upper sequence: GRMZM2G082527_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------tgataaagtaatttataggaattagtgtagaatgcgactggaattggttcagaaaatgttcttgacaaa---tctaatatcttttcatggtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
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gtgagtccgaaaaattcagagcaacttcatactaaactgttgtccatctcatgtcattacagtttgcacc--tgactatagtatgcggttacctttgttttgcatactgtcctctatacaacatctataataatcttgtatgatctttctgcagGTCTTGAATGAGGATCTTCGACTCGTGCTCGGGCAGCAAGAACGGATGATCAATGGCGCAAATGTCTGGAACTGGCCAGTATCATATGACAAGCTTGGTA
upper sequence: GRMZM2G082527_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 7
-------------------------------------tgataaagtaatttataggaa---ttagtgtagaatgcgactggaattggttcaga---aaatgttcttgacaaatctaatatct------tttcatg----gtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
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gtaaaatctccttcccactaatttcctcaagatgacatagtagcatgaagtttaaggcgctctgttcttgtatctgcattactctggttaaatgccatatgctatccaccctctctctatctgcacaatttcttgatgtgtgatttttttcagGTGTTGAATGAGGATCTACGGCTTGTACTTGGACAACAAGACCGGATGCTGATGGGGGCAAATGTGTGGAACTGCCCAGTATCATATGACAAGCTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttcagaaaatgttcttgacaaatctaatatcttttcatggtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
atctaat putative branch site (score: 3)
aaatctaatatctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgataaagtaatttataggaattagtgtagaatgcgactggaattggttcagaaaatgttcttgacaaatctaatatcttttcatggtggtcttgtgcagGTCTTGAACGAGGACCTCCGGCTTGTTCTTGGTCAGCAAGAACGGATGATCAATGGCGCCAACGTCTGGAACTGGCCGGTATCATATGACAAGCTCGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - agaatgc
- - - - - - - - - - - - - - - - - - - - - - - - -cagaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttcttg