Sequence
atgc intronic sequence ATGC exonic sequence...gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtggttcttatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os12g29660.1 (Oryza sativa), 3'ss of exon 11
gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtg-gttcttatatttcttt-atttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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-cttttgcccctttttgtcttgcagtcataaggaagaattatgc-catttaattatgttctttgacttctttcataaatgtttcttgttcatgctgttgcagTTATCTACATCGTGTTGGACGCACTGCTCGTGCAGGCAGAGAAGGATATGCTGTGACATTTGTTACTGACGATGATAGGTCCCTCTTGAAAGCTATT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM5G804064_T01 (Zea mays), 3'ss of exon 11
gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtggttct---tatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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aattttaa-taatgctactcgtttttttgcttccta-gttctagtcttatttctgattttagccacactattccataagtctgtac-attctttatgttatagTTATCTTCATCGTGTTGGCCGCACAGCACGGGCAGGAAGAGAAGGCTATGCCGTAACATTTGTAACCGATGATGATAGATCCCTCTTGAAAGCAATT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G420865_T01 (Zea mays), 3'ss of exon 11
-------gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtggttcttatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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ttataatgccacttgtttgcagattcctagt-tctagtcgtatttacttctg-attttagccatgct---gttctataagtttgtacattt--ttatgttattgtagTTATCTTCATCGTGTTGGCCGCACTGCGCGGGCAGGAAGAGAAGGCTATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------------------------------------------------gctttcagcttatataataagagtgttcaatggtcatactctgtgcat--ttgagtggttcttatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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gtacaatctatgatccatattggtagtaactctgcttgaaatgttgcgtgttattgacttcctgcattttttgtcactttccttcattgctacataagttacaatttatcatacacgattacatgttgatctcgccttaaacatgatctctttctctctatggattcctgataactttatctttttttattat-gaagCTATGTTCATCGAGTTGGTCGTACTGCAAGAGCTGGAAGAGAAGGATATGCAGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------------------------------gctttcagcttatataataagagtgttcaatggtcatact-ctgtgcatttgagtggttctt--atat----ttctt--tatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
upper sequence: Vv18s0001g14540.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------------------------------gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtggttcttat-------atttct--ttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
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gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcagtttttgtcactttcctttgttgctacataaatgataaatgttgatctcaccttaacatgatctctttctctgtatgggattcctgataatttatttatttattttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATTMapped 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|349812869|gb|FQ410511.1|FQ410511EST: ATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG TTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGC
genomic: ATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAGgtaaatttat ... atttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGC
EST:
gi|161719083|gb|FC069336.1|FC069336EST: ATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAG TTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGC
genomic: ATTGGTGTTCAAACAGTTATAAACTATGCATGTCCTCGTGATCTTACCAGgtaaatttat ... atttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttgagtggttcttatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
ttcttatatttcttta CT-rich tract
ttatatttctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctttcagcttatataataagagtgttcaatggtcatactctgtgcatttgagtggttcttatatttctttatttttttcttttgttctcatttttgcagTTACGTTCATCGTGTTGGTCGTACAGCAAGGGCTGGTAGAGAAGGATATGCTGTTACATTTGTAACTGATAATGATAGATCTCTCTTGAAATCTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- -ttcagct
- - - - - - - -aataaga
- - - - - - - - - - - - - - - - - catactc
- - - - - - - - - - - - - - - - - - - - - - gcatttg