Sequence
atgc intronic sequence ATGC exonic sequence...ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G08520.1 (Glycine max), 3'ss of exon 1
-----ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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tctatttgcttttctaggtgatataatttca--gatgtaggagttcttgaaaagcactggcctcttactttgttttttcttaataacttttcttatgtc---cagATAGAAACCCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G18840.1 (Glycine max), 3'ss of exon 8
-----ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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tctatttgcttttctaggtgatataatttca--ggtgtaggagttcttgaaaagcactggcctcttactttgttttgtcttaataacttttcttatgtc---cagATAGAAACCCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 8
--ttgattcttaaattg-aggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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tattttctctcattttacagatattatttcagatgtaggagttcttgaaaagcaatgacctcttactttattttgtcttaataacttttcttatgtc---cagATAGAAACTCGCAATAACAACCTGGAAATGCAATCAGTAAATAACAAATCTCTCATTGAAGAGCTTGATAAGCTTCTTGAGCGATTGCGTGTCCCTTCTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G03710.1 (Glycine max), 3'ss of exon 8
--ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaac--ttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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gacccctcatcctcctgaccctttattatcatcttcactttgacttaatgcattccaa----tgaacttttcttattttgtctcgattcttttgtggtatccagATTGAAACCCGCAATAACAAGTTGGAAATGCAAAATGTGAATAACAGAACTCTTATTCAAGAGCTTGATAAGCTTCTTGAGCAATTGAGTATCCCTTCTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 3'ss of exon 8
ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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aggagtgaaagagaaatttatttcaagtatatttgttgttggactgatcaaaccattatatgtcaacacatgttctcacttttttttttgtggttaccagATAGAAACTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAACTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTG
upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 3'ss of exon 8
--ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttga-acagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
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gggtgaaagagaaattgatttccaagtatatttgttggactgatta---aacctttatatgtcgacacatgttctcactttttttttgttttgtggttaccagATAGAAATTCGAAACAACAAGTTAGAGATGCAGTCTGTAAACAATAAAGCTCTCATTGAGGAACTTGATAAAGTTATTGAGAGACTGCGTGTGCCTTCTGMapped 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|254916610|gb|GR905436.1|GR905436EST: TAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTGAGTCG ATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCA
genomic: TAGGCATTTTCAATGTGAAACTTAGACACATGAGAGAGGATATTGAGTCGgtaggggcct ... tgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
ttgtaac putative branch site (score: 2)
aatttgtaactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgattcttaaattgaggcattagcatcattttggatgtaattatgtattattcacagcttgaacagacgtcaatttgtaacttttgttgtgacatgcagATAGAAACCCGCAATAACAAGTTGGAGATGCAATCTGTAAACAATAAAGCACTCATTGAGGAACTTGAAAAGCTTCTTGAACGATTGCGAGTCCCTTCTG
- - - - -aaattga
- - - - - - - - ggcatta
- - - - - - - - - - - - - - - - tggatgt
- - - - - - - - - - - - - - - - - - - - - - - - -tattcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacaga