Sequence
atgc intronic sequence ATGC exonic sequence...ggtgtgcttgcaatttgctatgtatttttgttgtctattgatgttgtattatatggtttcatttactgactgtgatttcttgcgggtattcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G11400.3 (Glycine max), 3'ss of exon 2
ggtgtgcttgcaatttgctatgtatttttgttgtctattgatgttgtattatat----ggtttcatttactgactgtgatttcttgcgggtattcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT
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--ttcttttgtgacttattattgatggtt-ttacctctctatgttgtaattaatttgagaagttgtcatctttcagtaatatctatttctcatcttcat-gcagGAAGCGACTATTTAATATGATAAATGATCTTCCGACAATATTTGAGGTTGTTACAGGGATGGCCAAGAAACAAGGAAAGGAAAAGTCATCAGTTTCAAAT
upper sequence: Vv04s0008g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G34250.1 (Glycine max), 3'ss of exon 1
ggtgtgcttgcaatttgctatgtatttttgttgtctattgatgttgtattatatggtttcatttactgactgtgatttcttgcgggtat----------tcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT
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---------gtgacttactattgatggct-ttacctctatatgttgtaacttgtaattaatttgagaagttgtcatctttcagtaatatctatttctcatcttcatgcagGAAGCGACTATTTAATATGATAAATGATCTTCCGACAATATTTGAGGTTGTTACAGGGATGGCCAAGAAACAAGGAAAGGAAAAGTCATCAGTTTCAAAT
upper sequence: Vv04s0008g01670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S38_137V6.1 (Physcomitrella patens), 3'ss of exon 4
ggtgtgcttgcaatttgctatgtatttttgttgtctattgatgttgtattatatggtttcat-ttactgactgtgatt--tcttgcgggtattcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT------
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gtccttcattcaggacagagaaatgatctgactttgcccactttgggaggagacgtcttcgtattgctgtctaaggaggatgttctggtgattctt---acagGAAGCGTTTGTTTAACATGATAAATGAGCTTCCAACAGTATTTGACGTAGTAACAGGAA------AAAAGCCTGTTAAGGAGAAGCTTGCTGTCAATAACATCTCTMapped 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|71864525|gb|DT013580.1|DT013580EST: GCTGTGGCCTTTTATTTTGGTGCTAGATTTGGATTTGATAAAGCTGACAG GAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGT
genomic: GCTGTGGCCTTTTATTTTGGTGCTAGATTTGGATTTGATAAAGCTGACAGgtatgctctt ... cttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGT
EST:
gi|27578473|gb|CB001168.1|CB001168EST: GCTGTGGCCTTTTATTTTGGTGCTAGATTTGGATTTGATAAAGCTGACAG GAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGT
genomic: GCTGTGGCCTTTTATTTTGGTGCTAGATTTGGATTTGATAAAGCTGACAGgtatgctctt ... cttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattatatggtttcatttactgactgtgatttcttgcgggtattcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT
tactgac putative branch site (score: 1)
ttcttgtt putative PPT
tttcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtgtgcttgcaatttgctatgtatttttgttgtctattgatgttgtattatatggtttcatttactgactgtgatttcttgcgggtattcttgttgcagGAAACGCCTTTTTAACATGATAAATGATCTTCCAACAATATTTGAGGTTGTAACGGGAACAGCCAAGAAACAAGTTAAGGAAAAGTCATCAGTCTCAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - -gcttgca
- - - - - - - - -ctatgta
- - - - - - - - - - - - - - tgttgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttgc