Sequence
atgc intronic sequence ATGC exonic sequence...cttcttggtaaacattcatggcttctatttgttcttatacttttttgtgtggctattggactgatttggctttttgttaacttgggggaatggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g01120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G18400.1 (Glycine max), 3'ss of exon 4
cttcttggtaaacattcatggcttctatttgttcttatacttttttgtgtggcta-ttggactgatttggc-tttttgttaacttgggggaatgg-tgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
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-------------gtttgttgccgccatccgtaattgaatttaaatGGGTGGATAGTTATACTGATTCATTATCTATGTTGTTTTTATGGTGTGGATTTGAAGGGGTGGATAGTTGTAAACTTCAAAAACAAACCCAAGGTGATGAAGTCTACTGAAATGGTTGCTGTTGACTGCGAAATGGTTCTCTGTGAAGATGGGACTG
upper sequence: Vv07s0129g01120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G50100.1 (Arabidopsis thaliana), 3'ss of exon 4
cttcttggtaaacattcatggcttctatttgttct--tatacttttttgtgtggctattggactgatttggctttttgttaacttgggggaatggt-gagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTC---AAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
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--------------------gttttgtttccttctcctaaacaatgagttcttgttacgtgttttatgcggttgtttaagag-ttgttgaattgcttaagcagGACTGGTTTGTATCCGATGTTGGAATGAAGATGAAAAAGGTGATGGAATCAACTAACATGGTAGCTGTTGATTGTGAGATGGTTCTTTGTGAAGATGGGA---
upper sequence: Vv07s0129g01120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G05540.2 (Arabidopsis thaliana), 3'ss of exon 4
cttcttggtaaacattcatggcttctatttgttcttatacttttttgtgtggctattggactgatttggctttttgttaacttgggggaatggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
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-------------gtttgtg--tttatcttgtttttatgttgaatggagtaactgattaaaaaaaaaagct----gaactctttgagttgcaaaaaacagGATTGGGTTAGAACAGGGCTTGGCAAGAAGAAGATGGAACCGACAAAGATCGAAATGATTGCCATTGATTGTGAGATGGTTCTTTGTGAAGATGGGAGTG
upper sequence: Vv07s0129g01120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G67240.2 (Arabidopsis thaliana), 3'ss of exon 4
------cttcttggtaaacattcatggcttctatttgttcttatacttttttgtgtggctattggactgatttggctttttgttaacttgggggaatggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
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gtttgtgtttctgtcaaattgatattagcttttccctctcttgctcctgcatatgagattatcaaaaactttttctgtattgctaaac---agGATTGGTATGTAACTGAGCTTGGAAAGAAGAAGTCGA-AAGTGATTAAATCTACTAGA---------ATGCTTTCTATTGATTGTGAGATGGTTACCTGTGAAGATGGGA---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|110412729|gb|EC978488.1|EC978488EST: TTGAACATCCGCAATACCCATTAGATTATTCATTCCCATCCCATGAAGAG GGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAAT
genomic: TTGAACATCCGCAATACCCATTAGATTATTCATTCCCATCCCATGAAGAGgtttgctgtt ... tggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAAT
EST:
gi|26261675|gb|CA812738.1|CA812738EST: TTGAACATCCGCAATACCCATTAGATTATTTATTCCCATCCCATGAAGAG GGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAAT
genomic: TTGAACATCCGCAATACCCATTAGATTATTCATTCCCATCCCATGAAGAGgtttgctgtt ... tggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtggctattggactgatttggctttttgttaacttgggggaatggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
tgttaac putative branch site (score: 2)
tttttgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcttggtaaacattcatggcttctatttgttcttatacttttttgtgtggctattggactgatttggctttttgttaacttgggggaatggtgagcagGGGTGGATGGTTACAAAAATTCGTCAAAAGTTCAAGTTTACAAGATCAAATGCAATGCTTGCTGTTGATTGTGAGATGGTTCTCTGTGAAGATGGAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
-ttcttgg
- - - - - - - -tcatggc
- - - - - - - - - - - - - - - - - - - - - - -tgtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggggg