Sequence
atgc intronic sequence ATGC exonic sequence...cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G152127_T01 (Zea mays), 3'ss of exon 9
cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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--gtaggccattcacccattcatattttgc----ttctgtgtttttatctcaat-gcatcgtctcgtcctataacaagatattgttttcttctat--cagCTTAACATGGATGACGTTTACATTTCCTATCTTCCGCTTGCTCATATATTTGACCGGGTGATTGAAGAGGTGTTCATTCGTCATGGTGCTTCAATTGGAT
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 9
------------cattgttttaattattttatttta-ttttaaagtatgttgcatgttttcttaagttgagttgattgctg----atgtttcatgtacctg--tgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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gtaagctagtggtggtattttaatttgagtgctctagtctctagaaatgttttcagttttaggataatgaatattttgctatcctatctttgacttacccacctttttcttgcttgcagTTGAATGAAAAAGATGTATACATATCATACCTTCCTCTTGCACATATCTTTGATAGGGTCATTGAGGAGGCAATGATAATGCATGGTGCCTCAATAGGTT
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G43470.5 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------------------------------cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagt-----tgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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gtatgtcgttttgtttcactactcctgcattaacctcgaaaatacatgaatatactgagaactctcaataggcaatttcatttcattcaagttactgataatagttcccctttcagttttaggatatcatacaggaatgcttaactatcctttctttgactcgtaatcttccgtcctttttccttcc----ttgcagTTGACTGAGAAGGATGTATACATATCATACCTTCCACTTGCACATATATTTGATAGGGTCATTGAGGAGACATTCATATGGCATGGTGCTTCAATAGGTT
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 9
---------------------------------------------------------------------------------------------cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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gtatgtcgttttgtttcactgctcctgcatatatacttggaaatacatgaatatagagagaactcccaatatgcaatttcatttcattcaagttactgataatagtccccctttcagtttttggataccatataggaatgcttaa-ttatcccctttcataatcttcc---cacctttttccttct-ttgcagTTGACTGAGAAGGATGTATACATATCATACCTTCCACTCGCACATTCTTTTGATAGGGTCATTGAGGAGATATTCATATGGCATGGTGCTTCAATAGGTT
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G02620.1 (Glycine max), 3'ss of exon 9
------cattgttttaattatttta--ttttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctg------tgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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gtaagctagtgttggtattttgagagctctagtctctagaaatgttttcagttttaggataatgaatattttgctatcctctctttgacttaccctcctttttcctgcttgcagTTGAATGAAAAAGATGTATACCTATCATACCTTCCTCTTGCACATATCTTTGCTAGGGTCATTGAGGAGGCAATGATAATGCATGGTGCCTCAATAGGTT
upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G11030.1 (Arabidopsis thaliana), 3'ss of exon 9
cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
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---------gtgagttttatttcatttgtcatgatttcacatgaagcgacagttt---ttaagttttaa-gttgtactgaattttgcaaaacaaat-cagCTATCTGAGAAGGATGTGTATATTTCTTATCTTCCTCTCGCGCACGTCTTTGATCGGGCAATCGAGGAATGTATTATTCAAGTAGGTGGTTCAATTGGTTMapped 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|351028751|gb|FQ433181.1|FQ433181EST: TTACTCTTATTGCTGGGGTGAAGCGCCTGTTACAGAGTGTCAATGAAGAG TTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTT
genomic: TTACTCTTATTGCTGGGGTGAAGCGCCTGCTACAGAGTGTCAATGAAGAGgtgatttctt ... gaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
tgctgat putative branch site (score: 3)
aaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattgttttaattattttattttattttaaagtatgttgcatgttttcttaagttgagttgattgctgatgtttcatgtacctgtgtctggaaattgcagTTGAATGAGAAGGATGTATTTATTTCATATCTTCCTCTAGCACATATCTTTGATCGGGTGATTGAAGAGTTATTTATTTCTCATGGTGCCTCAATAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtac