Sequence
atgc intronic sequence ATGC exonic sequence...ttcctatttcctgtttatctcaatatcatacatgtatgatatacatttctcatgcattcgcaagtctttaactgaggtgatgtatgcttccgtttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G06200.1 (Glycine max), 3'ss of exon 5
--------------ttcctatttcctgtttatctcaatatcatacatgtatgatatacatttctcatgcattcgcaagtctttaactgaggtgatgtatgcttccg-tttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
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gtaatatagcctttttgttataattgttttacttgggactaaaggattttttttgttaattacacccctttttctggtttatcgaattccctaatgtgtgtttgaaatttggcagGAAGGATCACCCCTGAAAGTGTAGTCTACAGTTTTGGCACCCTATTGCTTGGTCTTCTGAGTGGAAAGCATATCCCACCCAGTCAT
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G14240.1 (Glycine max), 3'ss of exon 5
ttcctatttcctgtttatctcaatatcatacatgtatgatatacatttctcatgcattcgcaagtctttaactgaggtgatgtatgcttccgtttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
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--------------------------------------------------------------gtttatcaaattccctaatgttt-ttgaaaattggcagGAAGGATCACTGCTGAAAGTGTAGTATACAGTTTTGGCACCCTATTGCTTGATCTGTTGAGTGGAAAGCATATCCCACCCAGTCAT
upper sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G41600.1 (Glycine max), 3'ss of exon 5
ttcctatttcctgtttatctcaatatcatacatgtat-gatata--catttctcatg-cattcgcaagtctttaactgaggtgatgtatgcttccg---tttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
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-------ttggaagttggaacaggggcatatttattttgatatgttcatgcattctgacttattcaatttcttaaccaagccaacacagttgtttgaaatttggcagGAAGAATCACCCGAGAAAGTGTAATATACAGTTTTGGCACACTCTTGCTTGATCTTCTGAGTGGCAAGCATATTCCACCCAGTCATMapped 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: AAGCTATAGTACAAACTTGGCTTTCANNNNNNNAGAATACTTGAGAACAG GTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTG
genomic: AAGCTATAGTACAAACTTGGCCTTCACCCCGCCAGAATACTTGAGAACAGgtaatagcta ... cgtttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctcatgcattcgcaagtctttaactgaggtgatgtatgcttccgtttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
ctttaac putative branch site (score: 3)
cttccgttt putative PPT
tctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcctatttcctgtttatctcaatatcatacatgtatgatatacatttctcatgcattcgcaagtctttaactgaggtgatgtatgcttccgtttgacagGTAGAGTGACTGCTGAAAGTGTAGTTTACAGCTTTGGCACACTATTGCTTGATCTTCTCAGTGGAAAACATATCCCCCCAAGCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - -ttcctgt
- - - - - - - - - - - - - catacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - cattcgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct