Sequence
atgc intronic sequence ATGC exonic sequence...tatgcaacatttcctcagcctggcagtgcaaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G119791_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g36420.1 (Oryza sativa), 3'ss of exon 2
tatgcaacattt-cctcagcctggcagtgcaaagcttgcttgcttatt-tttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
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--tgcagcattttcctttgatcagcagtagaagtttcatttacatgttctttactctcttgcttcttttctagcttgcttctgaaatctcaactttatttagGCAAGAAGGGGACTTGGCCTCACAGCAGATATTATTGATCATTGCAAGCTAGTCCTTAGATTTCCTAAAGGAACCAACAGCACTTGG-------------
upper sequence: GRMZM2G119791_T05 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G27570.1 (Glycine max), 3'ss of exon 2
tatgcaacatttcctcagcctggcagtgcaaagcttgcttgcttatttttcttctgttgtttgatcatcttc-----tatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
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-----aacaacaccgaaaatatctaatgaattgtatccaagttttgtcctttttaacttttaaaaaaaaataaaaaatagaatctgaggttgggaatgaaaacagGATAACAGGGGGCTTGGACTCACTGCACATATTATTGATCATTGCAAGTTAATTCTTAAATACCCTGAAGGTACCAACAGCACTTGG-------------
upper sequence: GRMZM2G119791_T05 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G27570.2 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------tatgcaacatttcctcagcctggcagtgcaaagcttgcttgcttatttttcttctgttgtttgatcatcttc-----tatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
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gtttgcattaaatgtcaacatagattattgatgtctaacttcaattctgaatttcttattggagaacaacaccgaaaatatctaatgaattgtatccaagttttgtcctttttaacttttaaaaaaaaataaaaaatagaatctgaggttgggaatgaaaacagGATAACAGGGGGCTTGGACTCACTGCACATATTATTGATCATTGCAAGTTAATTCTTAAATACCCTGAAGGTACCAACAGCACTTGG-------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|211445810|gb|FL398457.1|FL398457EST: ACGACGTGCGCGAGCTCGCGGGGTTCCAGTCCCGCGTCCAGCAGTGCGTG GCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTG
genomic: ACGACGTGCGCGAGCTCGCGGGGTTCCAGTCCCGCGTCCAGCAGTGCGTGgtacgtctcc ... ctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgcaacatttcctcagcctggcagtgcaaagcttgcttgcttatttttcttctgttgtttgatcatcttctatcttctgaaatctcgtctttatttagGCTAGCAGAGGACTTGGTCTCACAGCACATATTATTGATCACTGCAAGCTGGTCCTTAAATTTCCTGAAGGGACCAACAGCACCTGGGTCAGTATTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG