Sequence
atgc intronic sequence ATGC exonic sequence...ggttttggcttccctggtttattcctaccttcactaaggaaggaaatgaagcattatttttatttgtttttatctaagcaaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G41600.1 (Glycine max), 3'ss of exon 2
---------ggttttggcttccctggtttattcctaccttcactaaggaa-ggaaatgaagcattatttttatttgtttttatctaagcaaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
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cttagacccaagtccaaattgtaagaaatttgcattgcatgtttgtgaactgtgagtggaaggttagtttttgatgtcttt-------tgtgggtttgaacat---ttagGAGGAAGCAAGGGCAGTGGGGCAGCTGAGGAATGAGCGGTTGGCTAACTTGGTTGGTTGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCTGAGTTTA
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G06200.1 (Glycine max), 3'ss of exon 2
---------------ggttttgg---cttccctggtttattcctaccttcactaaggaaggaaatgaagcattatttttattt---gtttttatctaagcaaacgtttggttgta--ttttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
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gttcgtgctgattctgcttttgtgtcctttttttttttttttcgcttttccttgcatgtgtggtttgtgagtggattttatgtctgattttggtgtctggtttggtttggttggactttttagGATGAGGCACGTGCTGTGGGGCAGCTAAGGAGTGAAAGATTGGCTAACTTGGTTGGGTGTTGCTGTGAGGGAGAAGAGAGGTTGCTTGTGGCAGAGTTCA
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G14240.1 (Glycine max), 3'ss of exon 2
--------------ggttttggcttccctggtttattcctaccttcactaaggaaggaaatgaagcattatttt-tatttgtttttatctaagcaaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
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gttcgtgctgattctgtttctgtgcctcttttttttttttttttttacttttccttgcatgtgtgtgaaattttatgtttgattttggtgtttggtttggttggtctt--tttagGATGAAGCACGTGCTGTGGGGCAGCTAAGGAGTGAAAGATTGGCTAACTTGGTTGGGTGTTGCTGTGAGGGAGAAGAAAGGTTGCTTGTGGCAGAGTTCA
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 3'ss of exon 2
ggttttggcttccctggtttattcctaccttcactaaggaaggaaatgaagcattatttttatttgtt-tttatctaag-caaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
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--ttgaaggttttgtggattgccatctccttcggtgttgccatgtatgaattcttgtagatgtggattatttgtttgaatcatgcggaaggagggtttacagGATGAGGCATGGAAGGTGGGTCAAGTCCGACACCAGAGACTGGTGAATTTGATTGGATACTGCTGTGAAGGTGATGAGCGTTTGCTTGTTGCGGAGTATAMapped 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|30299737|gb|CB976531.1|CB976531EST: CTGTTAAACGTTTCAATAAGTCCGCTTGGCCCGATTCTCGGCAATTCCTG GAAGAAGCTAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTG
genomic: CTGTTAAACGTTTCAATAAGTCCGCTTGGCCCGATTCTCGGCAATTCCTGgtttgtgctc ... tgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaagcattatttttatttgtttttatctaagcaaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
attatttttatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttttggcttccctggtttattcctaccttcactaaggaaggaaatgaagcattatttttatttgtttttatctaagcaaacgtttggttgtattttagGAAGAAGCAAGAGCAGTGGGGCAGCTTCGAAATGAGCGATTGGCAAATTTGATTGGATGTTGCTGTGAAGGGGAAGAGAGATTGCTTGTTGCGGAGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - cttccct
- - - - - - - - - - - - - -ccttcac
- - - - - - - - - - - - - - - - - taaggaa
- - - - - - - - - - - - - - - - - - - - - -aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaaa