Sequence
atgc intronic sequence ATGC exonic sequencegcaagtggttgtctatccatatctactttgctaaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 5
------------gcaag--tggttgtctatccatatctact--ttgctaaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
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gtaccttgataggcaagcatgaccatctactaatttgtattaattgcaaattttttcttttctatgcagttattaac--tggatttagtatt-tatata-cagCATTGGTTTGACAGACAGGGAGGAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAA
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 6
gcaag--tggttgtctatccatatctactttgctaaactggtgtgtt-----tcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
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gcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 6
------gcaagtggttgtctatccatatctacttt---gctaaactggtgtgtttc-----gtgcaattcttactgatatattcaatattctct-atttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
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tgatgggcaagca--tgactatatattttaacttttaagtacaaattgtacatttttctttatgttgcagtttgtaattggctttacatttttttattgcagTGTTGGTTTGACAGAGAGGGAGGAGGGCGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 6
------------gcaag--tggttgtctatccatatctactttgctaaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
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gtaccttgataggcaagcataaccatctactaatttttgaattgctaattttttcttttctatgcagttattaaccggagttgctat-ttatata---cagCATTGGTTTGACAGAAAGGGAGAAGGGTGACTTAGGACCTGTTTATGGGTTTCAGTGGAGGCACTTTGGAGCCAAMapped 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|110361466|gb|EC924940.1|EC924940EST: AAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG TATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTT
genomic: AAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAGgcaagtggtt ... tctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTT
EST:
gi|110413975|gb|EC979795.1|EC979795EST: AAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG TATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTT
genomic: AAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAGgcaagtggtt ... tctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
tactgat putative branch site (score: 2)
ttctctatttc putative PPT
atatattcaatattct 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
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gcaagtggttgtctatccatatctactttgctaaactggtgtgtttcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG