Sequence
atgc intronic sequence ATGC exonic sequence...aatttaaattaattgttatatattataatttgtagatatccacaaaatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G36830.1 (Glycine max), 3'ss of exon 5
aatttaaattaattgttatatattataatttgtagatatccacaaaatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
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-gtgaggtttctctttgataagtcattcattgttga-aggaattatttatgttcttttg--tgaatcaagtaatctcattttaactagtgtgagtggcagAGGAGCAAAGTATCATGAGGCTGAGCACTGGAAGTTTGGAGAGGAAGGAAACAAGTATTTTAGGCATGCCACTGGCCAAATATATGCCATCTCCAAGGAT
upper sequence: Vv18s0089g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G00530.1 (Glycine max), 3'ss of exon 5
aatttaaattaattgttatata-ttataatttgtagatatccacaa-aatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
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--gtgaggtttctctttaattagtcattcattgttgaaggaaatattaatgttgttttgtaaatgaagtaat--atctcattttaatttgtgtgtgtggcagAGGAGTAAAGTATCATGAGGCTGAGAACTGGAAGTTTGGAGAGGAAGGAAACAAGTATTTTAGGCATGCCACTGGCCAAATATATGCCATCTCCAAGGAT
upper sequence: Vv18s0089g01040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G33430.1 (Arabidopsis thaliana), 3'ss of exon 5
aatttaaattaattgttatatattataatttgtagatatccacaaaatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgt---tgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
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---------------------------gtaagcttctttacaaaaaatttgaaacctttggataaaaatctgaactaaagtaaggatttttggaaatgtatagAGGAGTGAAGTACCACGAGCCAGAGTTTTGGAAATTTGGAGAAGAAGGTAACAAATACTTTAGGCATGCAACAGGTCAAATTTACGCAATCTCTAAAGACMapped 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|110384869|gb|EC949335.1|EC949335EST: CCTAGGATCTACATTGGATGCATGAAGTCAGGACCAGTTCTCTCTCAAAA AGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAA
genomic: CCTAGGATCTACATTGGATGCATGAAGTCAGGACCAGTTCTCTCTCAAAAgtgagctttt ... tgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
aattaat putative branch site (score: 3)
ccttgtt putative PPT
aaattaaaaattaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttaaattaattgttatatattataatttgtagatatccacaaaatatgaaattaaaaattaatgaagcgaaatgacgaaaatgaccttgttgggcagAGGGGTGAAATATTACGAGCCAGAGTTCTGGAAATTTGGAGAGGAAGGGAACAAGTATTTCAGGCACGCCACTGGTCAAATCTATGCAATTTCGAAGGAT
- - -aaattaa
- - - - - - - - - - - - - - - - - - - -ccacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatga