Sequence
atgc intronic sequence ATGC exonic sequence...gctcaagtatcacattgtatttaacattaatcattgagctattggtgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G051079_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g37880.3 (Oryza sativa), 3'ss of exon 4
---gctcaagtatcacattgtatttaa-cattaatcattgagctattggtgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
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tgttcttaatttttgaaatctatatattcatcctgcaatgcattat--attcaaaccaaggtgaatttgtttataaaatttttttga--attgacatttggcagGCCTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGATGGAGAGTCCAAGTTGCAGATACTTAATGGCAATTATCGTATTCCAGAGC
upper sequence: GRMZM2G051079_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 5
--------gctcaagtatcacattgt--atttaacattaatcat--tgagctattggtgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
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gtaagtcagttatactttatttttgttcaatgagtctgggttatgatttgctattcaagaagttttctgtgctttttaatacaaccaaaacctgaaattcatctttttgcagGCGCTTGGGTGCCTCCTCTTTCGCATATGCTACTTCAAATCTGCATTTGATGGTGAATCAAAGTTACAAATCTTAAATGGAAACTACCGCATTCCAGAAT
upper sequence: GRMZM2G051079_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ05535 (Selaginella moellendorffii), 3'ss of exon 3
gctcaagtatcacattgtatttaacattaatcattgagctattggtgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
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-------------------------gttggtcacttacttttccttt---ggttaaatggtttttattcacttggtacggtggtc--------tttgcagGCTCTTGGATGCCTTTTGTATAGACTATGCTTCTTTAAGTCTGCATTTGACGGGGAATCGAAGCTACAAATCCTGAATGGAAACTATCGAATTCCAGAAGMapped 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|101396493|gb|EB820173.1|EB820173EST: TGTGGGATCTCTACAGAAGAGAAGTTATCAGTGAAAAAGTTGACATTTGG GCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGAC
genomic: TGTGGGATCTCTACAGAAGAGAAGTTATCAGTGAAAAAGTTGACATTTGGgtaagtgcaa ... ccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
ttgtaac putative branch site (score: 2)
taatttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctcaagtatcacattgtatttaacattaatcattgagctattggtgaagagtgaagtaatttgtaacctcttctttttttggttacctaccactggcagGCTTTGGGGTGCCTTCTATATAGAATATGCTACTTCAAGTCTGCATTTGACGGAGAATCCAAGTTGCAGGTACTCAATGGCAATTATCATATCCCTGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - -tgtattt
- - - - - - - - - - - - - - - - - - -gctattg