Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G24310.1 (Glycine max), 3'ss of exon 10
gtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
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-----------gtatttga-ctaattccagagtttcttttactctggctcctagaaaattgtagatgatgta--------ttattgttgg----tctctgaattt--cagGCCTGTGACACTCATAGGTTACTCACTTGGGGCAAGAGTTATTTTCAAGTGTCTACAGTATTTGGCTAAAACTGAAAACGGTG
upper sequence: Vv04s0023g02940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G17160.1 (Glycine max), 3'ss of exon 8
gtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
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-----------gtatttga-ctaattccagagtttcttttactctggctcctagaaaattgtagatgatgta--------ttattgttgg----tctctgaattt--cagGCCTGAGACACTCATAGGTTACTCACTTGGGGCAAGAGTTATTTTCAAGTGTCTACAGTATTTGGCTAAAACTGAAAACGGTG
upper sequence: Vv04s0023g02940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G05680.1 (Glycine max), 3'ss of exon 10
gtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
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-----------gtatttta-ctaatgccagaatttcttttact----tcagcttcaagaa--aattg---tagatgatgtactattattgg---tctgtgaattt--cagGCCCGTGACACTTATAGGTTACTCACTTGGGGCAAGAGTTATTTTCAAGTGTCTACAGTATTTGGCTAAAACTGAAAACGGTG
upper sequence: Vv04s0023g02940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA01G37420.1 (Glycine max), 3'ss of exon 10
gtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaa---ttaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
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------------------------gtattttgcttatttcaaagtttct--ttataaaatttagctcctttaaaattgtggaatatgaaatatttttaatctatgaatttcagGCCTGTTACCCTTGTAGGTTACTCACTTGGGGCTAGAGTTATTTTCAAGTGTCTGGAGTTTTTGGCTGAAACAGAAAACAGTGMapped 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|110360866|gb|EC924300.1|EC924300EST: GCAGGAAAACTGCTAGCTGAAGTCTTACAGAAGGGATTGCAAGGGAACAG GCCTGTGACACTCATAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTG
genomic: GCAGGAAAACTGCTAGCTGAAGTCTTACAGAAGGGATTGCAAGGGAACAGgtaaatgggt ... gatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTG
EST:
gi|33401930|gb|CF207557.1|CF207557EST: AGAAGGGATTGCAAGGGAACAG GCCTGTGGCACTCATAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTG
genomic: AGAAGGGATTGCAAGGGAACAGgtaaatgggt ... gatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
acttaat putative branch site (score: 4)
tttttc putative PPT
ttgaatgacttaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgggtggtatcaaagttaatgatgtggtttattccattcttattagttctaagagttgaatgacttaattaaaattctctcttgggctttccttggatttttcagGCCTGTGACACTCGTAGGTTACTCTCTTGGAGCACGAGTGATTTTCAAGTGTCTGCAGTATTTGGCTGAAACTGAACAAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG