Sequence
atgc intronic sequence ATGC exonic sequence...gccatgttctggattttaaattagctaaactataatatttgtgtatattcaattgataagcctcttgggttcgtcttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01940.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G26640.1 (Glycine max), 3'ss of exon 2
gccatgttct---ggattttaaattagctaaactataatatttgtgtatattcaattgataagcctcttgggttcgtc--ttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
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----tgtttgaagggacttggcattatctgcagttgtttatgcatgtacagttaatag-tatggctctcattttccccaaactaaaaatacttttccatgggcagCAAATCCATGCACTGATTATGTCACTCAGTTACACTGGAATTGAAATCAAGACTGCACAGTCTCTAGAATCTTGGAGTGGTGGAGTTCTTGTGATGGTTT
upper sequence: Vv05s0049g01940.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G20920.1 (Glycine max), 3'ss of exon 2
gccatgttct---ggattttaaattagctaaactataatatttgtgtatattcaattg-ataagcctcttgggttcgtcttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
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----tgtttgaagggacttggccttatctgcatttgtttatgcatgtacaattaatagtatagctctcattttccctgaactaaaaatacttttccatggtcagCAAATCCATGCACTGATTATGTCACTCAGTTACGCTAGAATTGAAATCAAGACTGCACAGTCTCTAGAATCTTGGAGTGGTGGTGTTCTTGTGATGGTTT
upper sequence: Vv05s0049g01940.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G34200.1 (Glycine max), 3'ss of exon 2
-gccatgttctggattttaaattagctaaactataatatttgtgtatattcaattgataagcctcttgggttcgtcttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
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agccttgaag-ggattgggtgttctcttctgttttgtacttgtgcaattatagtgaagctcttatttccccccagaattaaagaaatttctctctgggcagCAAATCCATGCGCTTGTTATGTCACTCAGTTTTATTGGAATTGAAATCAAGACAGCACAATCTCTGGAATCTTGGAGTGGTGGAGTTCTTGTCATGGTTTMapped 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|71854675|gb|DT003730.1|DT003730EST: CTGTGCTTCGCGTTGACGGCAACACCAGAGAGACTGCTTCGGCAATGCTG CAAATCCATACACTTATCATGTCACTCAATTACACTGGCATTGAAATCAAG
genomic: CTGTGCTTCGCGTTGACGGCAACACCAGAGAGACTGCTTCGGCAATGCTGgtaattcttc ... cttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAG
EST:
gi|161717851|gb|FC064745.1|FC064745EST: CTGTGCTTCGCGTTGACGGCAACACCAGAGAGACTGCTTCGGCAATGCTG CAAATCCATACACTTATCATGTCACTCAATTACACTGGCATTGAAATCAAG
genomic: CTGTGCTTCGCGTTGACGGCAACACCAGAGAGACTGCTTCGGCAATGCTGgtaattcttc ... cttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattcaattgataagcctcttgggttcgtcttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
aattgat putative branch site (score: 4)
ttcgtcttttgccctg putative PPT
tttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccatgttctggattttaaattagctaaactataatatttgtgtatattcaattgataagcctcttgggttcgtcttttgccctgtttttcttttcacagCAAATCCATACACTTATCATGTCGCTCAATTACACTGGCATTGAAATCAAGACAGCACATTCCCTGGAATCTTGGAATGGAGGTGTTCTTGTGGTGGTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
-ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcctctt