Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatttgtttttttaaattgcttttgggcttataaaaccacaaatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G01350.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------gtaaggatttgtttttttaaattgcttttgggct-tataaaaccacaaatcttactgttcaa-attctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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gtgagaattttatatcttcaatcagtttgagattaacttaattgcttctctaggctaatattgtcactccataactatgataactttggggttctataacatgatgtttctcacaatatgatatgatatgatgcagATAAAATGGATTTGCCCAACTGCTCCTACCCGTCCTGTGGCGATACTTGGTGGTTTTCCCTGCACTGCAT
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------gtaaggatttgtttttttaaattgcttttgggcttataaaaccacaaatcttactgt---tcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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gtgagaattttatatcttcaatcagattgagattgacttaattgcttatctaggctactattctcactccataactatgatagcttcgggttccataacatgatgtgtttctcaaaaaatgatatgatatgatgcagATAAAATGGATTTGCCCTACTGCTCCTACCCGTCCTGTGGCGATACTTGGTGGTTTTCCCTGCACTGCAT
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------gtaaggatt-tgtttttttaaattgcttttgggcttataaaaccacaaatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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gtaagaaataaactttcctattctgcttttgtacaaacatattctcactttatccctataatattctgataaatctattctcg-tgtacaaaatatatgatgtttgttatgatgtgatgtggtgcagATAAAATGGATTTGCCCAACTGCTCCTACCCGTCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCAT
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 3
-----------------------gtaaggatttgtttttttaaattgcttttgggcttata-aaaccaca-aatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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ttttgtacaaacatattctcactttatccctataatattctgataaatctattctcttgtacaaaatatatgatgtttgttatgatgtgatgtggtgcagATAAAATGGATTTGCCCAACTGCTCCTTCTCGCCCTGTAACCATACTTGGTGGTTTTTCTTGCACTGCAT
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaaggatttgt--------ttttttaaattgcttttgggcttataaaacc------acaaatcttactgttcaaattctatgatg------cagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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gtaaggatccatggaaacaaacttggaagtaattttttgtatcactaaatattcttagtgaaggttctgataaaagatatatggtattctgtcagATCAAATGGATTTGTCCAACTGCTCCTTCGCGTCCTGTTTCGCTTCTCGGTGGATTTCCTTGCACTGCCT
upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------gtaaggat-ttgtttttttaaattgcttttgggcttataaaaccacaaatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
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gtaagaatctatcatacatgttttgttataagtccaccattaaatgaaagtgcatct---ctattgaagtctttaataaaaacatatgtatgctatg-cacagATAAAATGGATTTGTCCAACCGCTCCTTCGCGTCCTGTTACAAGTCTTGGTGGATTTACATGCACTGCTTMapped 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|110707158|gb|EE083312.1|EE083312EST: TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT ATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGT
genomic: TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAATgtaaggattt ... tatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGT
EST:
gi|110380838|gb|EC946134.1|EC946134EST: TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAAT ATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGT
genomic: TTGGTCCCAGCTCTTGGAAAACCTTCCACTTCCAAATgtaaggattt ... tatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcttttgggcttataaaaccacaaatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
atcttac putative branch site (score: 3)
ttataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatttgtttttttaaattgcttttgggcttataaaaccacaaatcttactgttcaaattctatgatgcagATAAAATGGATTTGTCCAACTGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA