Sequence
atgc intronic sequence ATGC exonic sequence...agttactaactagtaaagttgtaaaaatctttcctgatgtcagaacaaggaattctatttgatcatacgtgctcaattttcaatctctctgtcatttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g08200.2 (Oryza sativa), 3'ss of exon 6
--agttactaactagtaa-agttgtaaaaatctttcctgatgtcagaacaaggaattctatttgatcatacgtgctcaattttcaa--tctctctgt-catttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
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ctaaatattaaatgagagtgattatagtgagctatgtagttatctc--ctttgaattgcttcgg----cactttccaaaattttaagttctctttgtattttccagTTTGCGTTACATTACTCATGGTCAACTGAAGCACGTGCAAGACAAGCCCTAGCTAATGTATCTGCTTTGCTTCGTCCTGGAGGAGTTTTCATTGGGACAA
upper sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 6
--agttactaactagtaaagttgtaaaaatctttcctgatgtcagaacaaggaattctatttgatcatacgtgctcaattttcaatctctctgtcatttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
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gcagtta--gactattctattcaatacaaattatgttcattccatcttgaaagtgtatattggtttatactttctagtctgataaactttttaatgctgcagTTTGCATTGCATTACTCATGGTCTACGGAGGCCCGTGCCCGGCAAGCATTGGCTAATGTGTCAGCTTTACTTCGCCCAGGAGGCATTTTCATTGGAACAA
upper sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv19s0014g04740.t01 (Vitis vinifera), 3'ss of exon 6
agttactaactagtaaagttgtaaaaatct-ttcctgatgtcagaacaaggaattctatttgatca-tacgtgctcaattttca--atctctctgtca----tttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
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-----tgaatcatgcaaacattagatatagattttcgaggcttcttcaag---tttcattagatgaatatttgattaatttagatcatcacctgattaaattttgcagTTTGCTATGCATTACTCATGGTCTACTGAGGCACGGGCACGACGTGCTTTGGCCAATGTATCAGCATTACTTCGTCCAGGAGGCATCTTCATCGGAACGAMapped 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|32919824|gb|CF024636.1|CF024636EST: TGGATGAATATTTATATGAGGATGCTCCGTTTGATATATGTAGCTGTCAG TTTGCTTTACACT
genomic: TGGATGAATATTTATATGAGGATGCTCCGTTTGATATATGTAGCTGTCAGgtgagtcgtc ... gtcatttcagTTTGCTTTACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaggaattctatttgatcatacgtgctcaattttcaatctctctgtcatttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
atttgat putative branch site (score: 5)
tctctctgtcatttc putative PPT
aattctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttactaactagtaaagttgtaaaaatctttcctgatgtcagaacaaggaattctatttgatcatacgtgctcaattttcaatctctctgtcatttcagTTTGCTTTACACTATTCATGGTCAACTGAAGCACGCGCTAGACAAGCCTTGGCAAATGTGTCTGCATTACTTCGTCCTGGAGGCATTTTTATTGGGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - cctgatg
- - - - - - - - - - - - - - - - - - - - - gaacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgtgctc