Sequence
atgc intronic sequence ATGC exonic sequence...aattatattaattaacaattaagataactaaagaagttcaggagttgttcatttgtatggtaattgttatttttggccttagtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g01090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g21390.1 (Oryza sativa), 3'ss of exon 3
aattatattaattaacaattaagataactaaagaagttcaggagttgttcatttgtatggtaattgttatttttggcctt--agtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
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-gcccttttctgaaatatccaagctga-tatatttcgtgaggagtgatttatgtttaatactattatgtccctgaatattcgaggaatgtttactattgcagGTCTATTGACTGCAAGTACTTCGATTTTGGAACTGGTACTTGTCCCTTTGGGTCAAGCTGTTTCTACAAG
upper sequence: Vv13s0064g01090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G42750.1 (Glycine max), 3'ss of exon 3
--------aattatattaattaacaattaagataactaaagaagttcaggagttgttcatttgtatggtaattgttatttttggccttagtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
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tatttcacaacaagaaaaagaaaaacctcagctgagtgaaatagtgaatg-gctatctctttttctgatactc-----ttttgg--taattgtttaattcatttgtagGTCAATTGATTGCAAGCACTTTGACTTTGGGGAAGGGAACTGCCCTTTTGGAACTAGTTGTTTCTACAAG
upper sequence: Vv13s0064g01090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G16340.1 (Glycine max), 3'ss of exon 3
aattatattaattaacaattaagataactaaagaagttcag--gagttgttcatttgtatggtaattgttatttttggccttagtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
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ccatatagcatatatttcacaaggaaaaaaaaaaggctcagctgagtgaaatagt-gaatgactatctctttttctgatattc-tgtttaatccatttgtagGTCAATTGATTGCAAGCACTTTGACTTTGGGGAAGGAAACTGCCCTTTTGGAACTAGTTGTTTCTACAAGMapped 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|71864548|gb|DT013603.1|DT013603EST: ACAAAAGAAGAAAAGCAGGAAATCGTTGACAGCTACAAAGCAAAACTCAG GTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGG
genomic: ACAAAAGAAGAAAAGCAGGAAATCGTTGACAGCTACAAAGCAAAACTCAGgtaatgtcat ... cctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGG
EST:
gi|30299277|gb|CB976071.1|CB976071EST: ACAAAAGAAGAAAAGCAGGAAATCGTTGACAGCTACAAAGCAAAACTCAG GTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGG
genomic: ACAAAAGAAGAAAAGCAGGAAATCGTTGACAGCTACAAAGCAAAACTCAGgtaatgtcat ... cctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttcatttgtatggtaattgttatttttggccttagtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
tgttttctcctctcgc CT-rich tract
taattgttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattatattaattaacaattaagataactaaagaagttcaggagttgttcatttgtatggtaattgttatttttggccttagtgttttctcctctcgcagGTCTATTGACTGCAAGCACTTTGATTTTGGAAATGGGACATGCCCTTTTGGCACTAGTTGTTTTTACAAG
- - - - - - -aacaatt
- - - - - - - - - - - - -aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg