Sequence
atgc intronic sequence ATGC exonic sequence...gtctatctatctatatatgcatatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G073571_T03 (Zea mays), 3'ss of exon 3
--gtctatctatctatatatgcatatatcctttcttcaattt-tataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
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gttattggctgagcttattcagtttttcactttgtttgatttatatggctcctgtcttaaaacaa------tgaccgg---aattattttatgtgttccatagGACTTCGAATACACTGAGTTGAGCACCGTTTTGCAATATTATCCTCATGGTTATCATGGAGTTGACAAAGAGGGGAGACCTGTTTACATTGAAAGGCTTG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 3
----------------------gtctatctatctatatatgc-atatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
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gtaaatgtagatagaatttggataatatttactataataggttacaagattagcctctgcggtggttggatttgtttgttattgcatcctctgg---gcttaa-tgttttgtgtttgcgttagGATTTTGAGTTCAAAGAAGTAGATGAAGTTGTGAAGTATTATCCACATGGCCATCATGGTGTTGATAAGGAGGGAAGGCCTGTTTACATTGAGAGACTTG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G01220.1 (Glycine max), 3'ss of exon 3
------------------------gtctatctatctatatatgcatatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
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gtaaatgcagttggaatttgggacatttatttggct-tctgctttggcaggtttgagtacaaggaacacgacatgcttttcattga-ttgattggcttacctac-tgtttcatgttttcatcagGATTTTGAGTTCAAGGAGTTAGATGAAGTCGTGAAGTATTATCCACATGGCCATCATGGCGTCGACAAGGAGGGAAGGCCTGTTTATATTGAAAGACTTG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 3
-----------gtctatctatctatatatgcatatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
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gtaaatgcagatagaatttggata-atatttacaagattagcctctgcggtggttggatttgtttgttgttgcatcctctg---tgcttaa-tgttttgtgtttgcgttagGATTTTGAGTTCAAAGAAATAGATGAAGTGGTGAATTATTATCCACATGGCCATCACGGTGTTGATAAGGAGGGAAGGCCTGTTTACATCGAGAGACTCG
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G01260.1 (Glycine max), 3'ss of exon 3
------------------------gtctatctatctatatatgcatatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
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gtaaatgcagttggaatttggggcatttgtttggct-tctgccttggcaggtttgagtacaaggaacatgacatgcttttgcagtgattggttggcttacctac-tgtttcgtgttttcttcagGATTTTGAGTTCAAGGAGTTAGATGAAGTCGTGAAGTATTATCCACATGGGCATCATGGCATCGACAAGGAGGGAAGGCCTGTTTATATTGAAAGACTTGMapped 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|30299808|gb|CB976602.1|CB976602EST: TTTGGTGCTGACACAATTGANGGAG GATTTTGCGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGG
genomic: TTTGGTGCTGACACAATT-TTGGAGgtatcgatat ... ttgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
tttgatattgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctatctatctatatatgcatatatcctttcttcaattttataagtgctgttttgtaccaaattctttgacatgtttacctgtttgatattgttatcagGATTTTGAGTTCAAAGAGTTGAATGAGGTGTTGAAATACTATCCCCATGGTCATCATGGTGTGGATAAGGAGGGAAGACCTGTTTACATTGAAAGACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - -tatgcat
- - - - - - - - - - - - -tcctttc
- - - - - - - - - - - - - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - taccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacctgt