Sequence
atgc intronic sequence ATGC exonic sequence...aagcacttagcccatatgatatgattatctgtctttcctaatttggtcttgtagtttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os11g10050.1 (Oryza sativa), 3'ss of exon 2
---aagcacttagcccatatgatatgattatctgtctttcctaatttggtcttgtagtttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
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tttagctaaactgggcccttgaatcaatggccaagatttaaagatttcttttaccacaaaataagcaatgct-tgtcacatcattggaatt--gtgcttgtagGTTGCAAATGTTCAATGTCCTCGTGATACTCATTTTTGGGTTTATGATGATGGTCGCTATGAGGAAGAAGGACAGAACAACATCAAAGGAAAAATCTGGG
upper sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G016858_T01 (Zea mays), 3'ss of exon 2
aagcacttagcccatatgatatgattatctgtctttcctaatttggtcttgtagtttgttgtcgatgtgata-----ttaacac-ttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
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----ccatagccaagatttcaaga--gtcaatttacctacaaagaggcatggagtgcactgtaaaagagttacccttttatctcaccacttgcattatgcttgcagGTTGCAAATGTTCAGTGTCCCCGTGACACTCATTTTTGGGTTTATGACGATGGTCGTTATGAGGAAGAAGGTCAAAACAACATAAAAGGAAAAATATGGG
upper sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G01470.1 (Glycine max), 3'ss of exon 3
---aagcacttagcccatatgatatgattatctgtctt-tcctaatttggtcttgtagt-ttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
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tgatcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtattactgaaatcaatataataaccttt-----ctttgaattttcagCTGGCAAATGTGCAGTGTCCACGTGATACACACTTTTGGGTCTATGACGATGGTCGTTATGAGGAGGAAGGTCAAAATAATATCAGAGGAAACATTTGGG
upper sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34300.1 (Glycine max), 3'ss of exon 3
-aagcacttagcccatatgatatgattatctgtctt-tcctaatttggtcttgtagtttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
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atcccttttaatctttggatgatcattatcattatcataatatcatgggattatggtat-tactaaaatcaatataataacctttttctttga-attttcagCTGGCAAATGTACAGTGTCCACGTGATACACACTTTTGGGTTTATGATGATGGTCGTTATGAGGAAGAAGGTCAAAATAATATTAGAGGAAACATTTGGG
upper sequence: Vv02s0012g02570.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G31930.3 (Arabidopsis thaliana), 3'ss of exon 3
aagcacttagcccatatgatatgattatctgtctttcctaatttggtcttgtagtttgttgtcgatgtgatattaacacttaggtgttta-atgtgt-tcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
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-------------gtaacgtttgatattgtcttgttttaagtatcacatgtcaagaaacaatcgaat--ataataaaccttgcttgtgtgtatatatctcagCTAGCAAATGTACAGTGTCCACGTGATACTCATTTTTGGGTATATGACGATGGACGTTATGAGGAAGAAGGGCAGAATAATATCCGAGGAAACATTTGGGMapped 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|110376471|gb|EC941535.1|EC941535EST: TTTACATCAATGGCCGAGAAATTACAAGACTGGAACTGAGAGTGCTAAGG CTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGAT
genomic: TTTACATCAATGGCCGAGAAATTACAAGACTGGAACTGAGAGTGCTAAGGgtaagtcatt ... atgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcttgtagtttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
tgatattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagcacttagcccatatgatatgattatctgtctttcctaatttggtcttgtagtttgttgtcgatgtgatattaacacttaggtgtttaatgtgttcagCTGGCAAATGTACAGTGTCCACGGGACACACATTTCTGGGTCTATGATGATGGCCGTTATGAGGAGGAAGGTCAGAATAATATCAGGGGAAATATCTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - -ccatatg
- - - - - - - - - - - - - - - -tctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtc