Sequence
atgc intronic sequence ATGC exonic sequence...ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G41810.2 (Glycine max), 3'ss of exon 1
ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttctgt--ttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
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tacatctttgcatcc-ctctatctctctattagc-tgcttttcttttaccattttatttgtataaagggttcatcattgctcacgtgttcgtccttaatcagAATCAGGGAAGCTCATCACATGGGGCTCAACAGATGATCTAGGCCAAAGCTATGTGACTTCTGGCAAGCATGGG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 1
-ttcctttcaacagcagctctactcaatgatttccctgcaattcttt--cattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
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gtacgtatt--tggttcctttatctctctattcgcttgttttcttttaccattttatttgtataa-agcattcaccattgctcacgtgcacgtccttaatcagAATCGGGGAAGCTCATCACATGGGGCTCAACAGATGATCTAGGCCAAAGCTATGTGACTTCTGGCAAGCATGGG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 1
ttcctttcaacagcagctctactcaatg-atttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
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tttcttttgaagggagttat-cccagtgcacatctctctgttcttcccttttcttctaacgtaaaggaatcgtcattacttatattttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 1
ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttc--tgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
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tttcttttgaagggagttat-cccaatgcatatctctctgttcttcccttttc-ttataacgtaaaggaatcatcattacttatactttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
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gtgatagaatgttttcaattgaaaagttcttcacatttcgaatcaatttcataaaatgttatctgatttgaaatcatgagtaattttttgaagttgaatgatatg----gtttttgttaaaacagAGTCAGGGAAGCTAATTACATGGGGTTCTACAGATGATCTAGGTCAAAGCTACGTCACATCTGGGAAACACGGGMapped 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|110385026|gb|EC949508.1|EC949508EST: TTGGAGGGACGTGTGTGGTGGTGGTTGCGGTTTCGCCATGGCCATATCTG AGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCT
genomic: TTGGAGGGACGTGTGTGGTGGTGGTTGCGGTTTCGCCATGGCCATATCTGgtgctttttt ... gtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
ttttaat putative branch site (score: 3)
ttttttctcatgcttc putative PPT
ttaattattttccaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttctgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG
- cctttca
- - - - - - -cagctct
- - - - - - - - - - -ctcaatg
- - - - - - - - - - - - - - - - ccctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaaag