Sequence
atgc intronic sequence ATGC exonic sequenceGGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtattaatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os12g27520.1 (Oryza sativa), 5'ss of exon 9
GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtatt-aatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
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GACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACGgtatgttg---ttgggtgcaatatttggtttgtattctatcacaacaacagcaggatttttgagttacgaaagc-taccgcag-------------------------
upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 5'ss of exon 8
-----------------------------------GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtatt-aatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
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ATGTTTACGATTGGAATGGCTGTTGTTCTGTTCAGGACTTGGATGGAGTTACCCCTGTGATATATGGAGTGTTGGTTGTATACTGGTTGAGCTATGCACGgtatgttg---ttgggtgcaatatttggtttgtattctatcacaacaacagcaggatttttgagttacgaaagc-taccgcag-------------------------
upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G179308_T03 (Zea mays), 5'ss of exon 8
GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtattaatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
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GACTTGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACGgtatgtt--attgtgccttggt-ttgattttgcatgta-caagta--cagaggatctgagttacca--aggttctgcag----------------------------
upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G063792_T01 (Zea mays), 5'ss of exon 4
-----------------------------------GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtattaatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
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TGGTGATATTTTATGATTGTGTGGATCTTGTTCAGGACATGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACGgtatg-ttaatgggaccttggcttca-----tttggcat-gtacaagtaccaggggatctgagttaccaaggtt--gtgcag-------------------------
upper sequence: Vv01s0137g00580.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G063792_T06 (Zea mays), 5'ss of exon 7
GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtattaatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
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GACATGGATGGAGTTACCCATGTGATATCTGGAGTGTTGGTTGTATTCTTGTTGAGCTTTGCACGgtatg-ttaatgggaccttggcttca-----tttggcat-gtacaagtaccaggggatctgagttaccaaggtt--gtgcag-------------------------Mapped 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|110698778|gb|EE076668.1|EE076668EST: ATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCG GGAGAAGCTTTGTTTCAGACACATGAGAACTTGGAGCACCTGGCCATGATG
genomic: ATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaa ... cctgttgcagGGAGAAGCTTTGTTTCAGACACATGAGAACTTGGAGCACCTGGCCATGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTTGGATGGAGTTATCCATGTGACATGTGGAGCGTTGGTTGTATATTGGTGGAACTATGTTCGgtatgcttaatctctctgtagtattaatgatctttgcatcaaatggctggatggtaatacatgtcatgaagtcctaatgcaaaacatgtggctgcttcctgttgcag
- - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - GGTGGA