Sequence
atgc intronic sequence ATGC exonic sequence...tgtaaaacccaattgattgattcaatttccattggatgtccgggcttattggtgtttactataatgtttaagttaacaaacatgaattcttttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g12680.1 (Oryza sativa), 3'ss of exon 4
-------tgtaaaacccaa---ttgattgattcaatttccattggatgtccgggcttattggtgtttactataatgtttaagttaacaaacatgaattcttttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
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ctgaggctgtgcatttatagttttcaatacttcatttttctttgtattgcttttctgatttttttatatcata-tatttatg-------acgtgtaccctatg--cacagGTTGCTGATTTTGGACTTGCTAAGTTCACCAGTGATAATAACACTCATGTTTCGACAAGAGTAATGGGCACTTTTGG
upper sequence: Vv11s0016g03880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G09420.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------------tgtaaaacccaattgattgattcaatttccattggatgtccgggctt---attggtgtttactataatgtttaagttaacaaacatgaattcttttgtctc-------agGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
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gtgtgttgttctgttatgggtcttaccaacacttgcaaaagttgatataacaactgttcattgccctctaattgataaaacaacttccattgttctatat--agtggtgatgcaacctttaaaatgttatgtaaagtcgtgatagaattgtttagtaacaagacctttgtttctgttgacagGTTGCAGATTTCGGTCTTGCAAAGTTTTCTTCTGATGTCAATACTCATGTTTCTACTCGAGTGATGGGGACTTTTGG
upper sequence: Vv11s0016g03880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G32390.1 (Glycine max), 3'ss of exon 4
---------------------------------------tgtaaaacccaattgattgatt---caatttccattggatgtccgggc-----ttattggtgtttactataatgtttaa---gttaacaaacatgaattcttttgtct-----cagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
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gtgtgttgttctgttatgggtttgggtcttcctcacaagtgcaaaagttgataaaacaactgcccattgtctactaattgataaaacaacttccattgttctatatagtggtgatagaattgtttagtaacacgacctttgttttttgttgacagGTTGCAGATTTTGGTCTTGCAAAGTTTTCTTCTGATGTCAATACCCATGTTTCTACTCGAGTGATGGGGACTTTTGGMapped 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|110691421|gb|EE069507.1|EE069507EST: GCGATATCAAGGCAGCTAATATACTTTTGGATTTCAAGTTTGAGGCAAAG GTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTC
genomic: GCGATATCAAGGCAGCTAATATACTTTTGGATTTCAAGTTTGAGGCAAAGgtggggattc ... tttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTC
EST:
gi|110712846|gb|EE088247.1|EE088247EST: GCGATATCAAGGCAGCTAATATACTTTTGGATTTCAAGTTTGAGGCAAAG GTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTC
genomic: GCGATATCAAGGCAGCTAATATACTTTTGGATTTCAAGTTTGAGGCAAAGgtggggattc ... tttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattggtgtttactataatgtttaagttaacaaacatgaattcttttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
agttaac putative branch site (score: 3)
ttcttttgtctc putative PPT
tttactataatgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaaaacccaattgattgattcaatttccattggatgtccgggcttattggtgtttactataatgtttaagttaacaaacatgaattcttttgtctcagGTTGCAGATTTTGGACTTGCTAAGTTTTCTTCTGATGCCAATACTCATGTCTCGACTCGGGTAATGGGAACTTTTGG
- - aaaccca
- - - - - - - - - - - - - - ccattgg
- - - - - - - - - - - - - - - - - - - - - - - - -tggtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaacat