Sequence
atgc intronic sequence ATGC exonic sequence...cacaggattccgagttctattaaagatagtagagatcattagagatcctttgtttgtgtttcttattatcctgcttgtaattctgtgactatccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 22
---------cacaggattccgagttctatta-----aagatagtagagatcattagagatcctttgtttgtgtttcttattat-cctgcttgtaatt----------ctgtgacta---------tccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
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gtacttgtacattagctttcagccttcaagagaaataaaataccatatgtcctgatgaattccctttttttttttaaaaaaacatctgtttataatttatggcatggctgttactaattatagtttttccatagATTTTTCCACTCCATGAGAAGATAGAGAATATTAATGATCAGTACTGGACACTACGTGCTGAGGAG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GRMZM2G303655_T01 (Zea mays), 3'ss of exon 16
----------------------------------cacaggattccgagttctattaaag--atagtagagatcattagagatcct-----ttgt-ttgtgttt---ctta---ttatcctgcttgtaattctgtgactatcc-ctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
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gttcgtgcatggtttatctgaagtatttcctgcatgaaaggtcctggctttttctaatgcaatattctagaatttctgaacttctaaaattagtgttatattttcccttaaatttgacattgttaggatgatataattattttctgcagATCTTTCCACCTCATGAGAAGATAGAGAACATAAATGATCAGTACTGGACATTACGAGCTGAGGAG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 26
-------------------------------------------cacaggattccgagttc--tattaaagatagtagagatcattagagatcctttgtttgtgtttctta---ttatcctgcttgtaattctgtgactatcc-ctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
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gtttgcgcatgatttatgtgaagtatttaccgaatgaagagtcctggctctttctaatccaatgttctagaatttctgaatttgtaaaattagtgttatttttttccttaaacttggcattgttagtatgatataattattttctgcagATTTTTCCGCCTCATGAGAAGATAGAGAACATAAATGATCAGTACTGGACATTACGAGCTGAGGAG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 22
-cacaggattccgagttctattaaagatagtagagatcattagagatcctttgtttgtgtttcttattatcctgcttgtaattctgtga-ctatccct-gcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
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cctgcttaacgtaatacctatttctttctttcttaactatgagaaaatattc---caaattctgggtagttttgttcatagtcttgcgatctatcttttgcagATTTTCCGTGTCAATGAAAAGATTGAGAACATTAATGATCAATATTGTGCACTTCGAGCAGAGGAG
upper sequence: Vv13s0073g00610.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 26
----------------------------------------------------------------------------------------------cacaggattccgagttctattaaagatagta-gagatcattagagatcctttgtttgtgtttcttattatcctgcttgtaattctgtgactatccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
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gttatttgcagacttcagtctatttggatcgcatttgagcttggtattttgggggggagagggggtcattgattctagtagaatggtagcgttatactatttttaatgccctatttctgatttcgtgattttattgtcggtaataagttgaaatgataaatgtattttcgcgacatcttttggg-atctttccagATCTTCCCCTTGAGCGAGAAGATTGAGAACATCAATGATCAATACTGGACGCTTCGAGCTGAGGAGMapped 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|110710415|gb|EE086729.1|EE086729EST: TTTCTATCACAAGATCTACAAG ATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACA
genomic: TTTCTATCACAAGATCTACAAGgtaatggatt ... atccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACA
EST:
gi|351033616|gb|FQ447775.1|FQ447775EST: CTAATGCAGAACTTAGATTGCTTGAAGTTTTCTATCACAAGATCTACAAG ATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACA
genomic: CTAATGCAGAACTTAGATTGCTTGAAGTTTTCTATCACAAGATCTACAAGgtaatggatt ... atccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctttgtttgtgtttcttattatcctgcttgtaattctgtgactatccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
ctatccct CT-rich tract
tttcttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacaggattccgagttctattaaagatagtagagatcattagagatcctttgtttgtgtttcttattatcctgcttgtaattctgtgactatccctgcagATTTTCCCACTCAATGAGAAGATTGAGAACATTAATGATCAATACTGGACATTACGTGCAGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - -aaagata