Sequence
atgc intronic sequence ATGC exonic sequencegtatgcatggcctaatggtcatttttctaaaatttgggtacaatgaaatgtgaaccaagcatgttattgttttatgatgtatcatggaagcatttctgtgcatgtattttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA10G32040.1 (Glycine max), 3'ss of exon 12
gtatgcatggcctaatggtcatttttctaaaatttgggtacaatgaaatgtgaaccaagcatgttattgttttatgatgtatcatggaagcat-ttctgtgcatgtat-tttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
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gtacgaaaaagtctttt-ttacttataaaatatattgctgtcctcaagcat---ctaagactatcagtggtccctctgatcttaaactaatatattgagtgcttgtatgcatcagATTCCAGATGTTAAAGCAGGAGATGAACTGATTGATGCAGTTGTTGTTGATGAGGAGTCAGTAGGATCAGTAAATGCCCCTGGTTGTGGAGGAAAAATTC
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G28260.1 (Glycine max), 3'ss of exon 14
gtatgcatggcctaatggtcatttttctaaaatttggg----tacaatgaaatgtgaaccaagcatgttattgttttatgatgtatcatggaagcattt-ctgtgcatgtat-tttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
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gtattgaacagtt--tgtttattcttaaaatatctaattatctatatctatcttcaagtatcacaaactatcactctcctattttttttactaacacataccatgcttatttgcaccagATTCCTGATATTAAGACAGGAAGTGACCGAGTTGATGCAGTTGTAATCGATGAAGAGTCAGTAGGATCACTAACTGCCCCTGGATGTGGAGGGAAAATTC
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA20G35600.1 (Glycine max), 3'ss of exon 13
gtatgcatggcctaatggtcatttttctaaaatttgggtacaatgaaatgtgaaccaagcatgttattgttttat--gatgtatcatggaagcatttctgtgcatgtat-tttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
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gtacgaaaaagtctttt-ttatttttaaaatatattgctgtcctcaagcat---ctatgactatcagtggtccctccgatcttcaactaatacattga-gtgcttgtatgcatcagATTCCAGATGTTAAAGCAGGAAATGAACTCATTGGTGCAGTTGTTGTTGATGAGGAGTCAGTAGGATCAGTAAATGCCCCTGGTTGTGGAGGAAAAATTC
upper sequence: Vv18s0089g01240.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA16G33080.1 (Glycine max), 3'ss of exon 14
-----gtatgcatggcctaatggtcatttttctaa----aatttgggtacaatgaaatgtgaaccaagcatgttattgttttatgatgtatcatggaagcattt-ctgtgcatgtattt-tcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
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gtattggacagttggtttattcttaaaatatctaactgtgtatcagctatcttcaagtatca--caaac-tatcactcttctctacggttttgtactaacatatacgatgcttatttgcaccagATTCCTGATATTAAGACAGGAAGTGACCGAGTTGATGCAGTTGTTATCGATGAAGAGTCAGTAGGATCACTAACTGCTCCTGGATGTGGAGGGAAAATTCMapped 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|30132359|gb|CB917698.1|CB917698EST: GGTTTAAGAGCCCTATTAGAGAGCATTCTAACTGAAGCCATGTATGAG ATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGAT
genomic: GGTTTAAGAGCCCTACTAGAGAGCATTCTAACTGAAGCCATGTATGAGgtatgcatgg ... gtattttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGAT
EST:
gi|110698280|gb|EE075629.1|EE075629EST: GGGGTTTAAGAGCCCTACTAGAGAGCATTCTAACTGAAGCCATGTATGAG ATTCCTGATGGTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGCTGAT
genomic: GGGGTTTAAGAGCCCTACTAGAGAGCATTCTAACTGAAGCCATGTATGAGgtatgcatgg ... gtattttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgttattgttttatgatgtatcatggaagcatttctgtgcatgtattttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
tattttc CT-rich tract
ttattgttttatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcatggcctaatggtcatttttctaaaatttgggtacaatgaaatgtgaaccaagcatgttattgttttatgatgtatcatggaagcatttctgtgcatgtattttcagATTCCTGATGTTAAGACAGGAAAGGATAGAGTAGATGCTGTTGTGGTTGATGAGGAGTCAGTGGGTTCAGTAAATGCCCCTGGATGTGGAGGGAAAATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG