Sequence
atgc intronic sequence ATGC exonic sequence...ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaatagagatattaatccttttttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G44330.1 (Glycine max), 3'ss of exon 5
ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtg-aatagagatattaatccttt--tttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
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-catgtgttttaatttgttttacgtgtgaagag--tagaattattgcataattaattaattagtttataaattatgttattcattttttgcatcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCTCTACCTATTGGACTTAAGGCTCCAGCGCTTGATAGTGTGATGA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G13430.1 (Glycine max), 3'ss of exon 5
-----ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaatagagatattaatccttttttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
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tgtcaaatgatcatatggttgttgttttacgtgtgaagagtagaataac-atcattaatta-attaattagtttttatattt-tatttatt--ttcattttacagTCAAAGGAGTGCATAGATGCAGCTATTGGAGATGTTTTATCAAAGCCTTGGCTGCCGCTACCTATTGGACTTAAGGCTCCAGCTCTTGATAGTGTGATGA
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G37010.1 (Glycine max), 3'ss of exon 6
ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaata--gagatattaatccttttt-tttttttctgttttttggtatatattg-cagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
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-cacaacacaagagaga---tatatttcgagaagtagctagaattaataatattgcaaggttaatctaacgtgtgtgtgtgtgggtcgtgtgttgttttgacagTCAAAGGAGAGCATAGACGCAGCTATTAGTGATGTTTTATCAAAACCATGGCTGCCACTACCTCTTGGCCTTAAAGCTCCAGCACTTGATGGTGTAATGG
upper sequence: Vv12s0028g03100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G44190.1 (Arabidopsis thaliana), 3'ss of exon 4
------ggagattgcatggctctctctccatcttaaag-----ggtcagcatgcttgtgaatagagatat----taatccttttttttttttctgttttttggtatata----ttgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
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gtgagtgcaccttttttggtttcaattttgtttattagattttgattatgacataacccaaaaaagttttcgaataaattttggataattaacaatatttcattacttgacggttgcagTCGAATGAGAGCATAGATGCAGCTATTGGGGACGTTATATCAAAGCCGTGGCTGCCGCTTCCTTTGGGACTGAAACCGCCGTCGGTTGACGGTGTTATGAMapped 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|30295668|gb|CB972462.1|CB972462EST: GCGTCCCGGCTCGACATTCGGGCCCCTTTCCTCTCTTCGATTTTCATCCC TCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGG
genomic: GCGTCCCGGCTCGACATTCGGGCCCCTTTCCTCTCTTCGATTTTCATCCCgtgagcaccc ... tatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaatagagatattaatccttttttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
tattaat putative branch site (score: 2)
tccttttttttttttc CT-rich tract
atattaatcctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagattgcatggctctctctccatcttaaagggtcagcatgcttgtgaatagagatattaatccttttttttttttctgttttttggtatatattgcagTCCAAAGAGACCATAGATGCAGCCATTGGAGATGCTTTATCAAAGCCATGGCAGCCTCTTCCTCTTGGCCTAAAACCTCCTTCTCTTGATGGTGTGATGG
- - - -gcatggc
- - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - - - - - - - - - -atagaga