Sequence
atgc intronic sequence ATGC exonic sequence...gactatatgcaacatttcctcagcagtgctaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G136098_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g36420.1 (Oryza sativa), 3'ss of exon 2
gactatatgcaacatttcc------tcagcagtgctaagcttgcttgcttatt-tttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
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-------tgcagcattttcctttgatcagcagtagaagtttcatttacatgttctttactctcttgcttcttttctagcttgcttctgaaatctcaactttatttagGCAAGAAGGGGACTTGGCCTCACAGCAGATATTATTGATCATTGCAAGCTAGTCCTTAGATTTCCTAAAGGAACCAACAGCACTTGG
upper sequence: GRMZM2G136098_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G27570.1 (Glycine max), 3'ss of exon 2
gactatatgcaacatttcc--tcagcagtgctaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
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aacaacaccgaaaatatctaatgaattgtatccaagtt--ttgtcctttttaacttttaaaaaaaaataaaaaatagaatctgaggttgggaatgaaaacagGATAACAGGGGGCTTGGACTCACTGCACATATTATTGATCATTGCAAGTTAATTCTTAAATACCCTGAAGGTACCAACAGCACTTGG
upper sequence: GRMZM2G136098_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G27570.2 (Glycine max), 3'ss of exon 2
----------------------------------------------------------------gactatatgcaacatttcc--tcagcagtgctaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
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gtttgcattaaatgtcaacatagattattgatgtctaacttcaattctgaatttcttattggagaacaacaccgaaaatatctaatgaattgtatccaagtt--ttgtcctttttaacttttaaaaaaaaataaaaaatagaatctgaggttgggaatgaaaacagGATAACAGGGGGCTTGGACTCACTGCACATATTATTGATCATTGCAAGTTAATTCTTAAATACCCTGAAGGTACCAACAGCACTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
gtttgat putative branch site (score: 5)
tctcgtctttattt putative PPT
tctttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gactatatgcaacatttcctcagcagtgctaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAACACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - -tatgcaa
- - - - - - - - - -tcagcag
- - - - - - - - - - - - - - - -agcttgc
- - - - - - - - - - - - - - - - - - - - - - - - -tcttctg