Sequence
atgc intronic sequence ATGC exonic sequence...tcacctttgaaactattttcttttttttttgagcatttgttaacatgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g56110.2 (Oryza sativa), 3'ss of exon 9
---tcacctttgaaactattttcttttttttttgagcatttgttaacatgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
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attgaatgcatgcatccatgagatatatcttctggtcgtctgtctttgaccaatagtagaaaatgtcttcaattcatgctgaactct-tgttga--ttaacagGCTGGAAATCATGTGAAGGATGATGTGTGGCATGCCCTCGTTGTTGTAATAAGCAATGCATCAGAACTTCAAGGATATTCAGTGAGGTTATTATACATGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G39930.1 (Glycine max), 3'ss of exon 9
tcacctttgaaactattttcttttttttttgagcatttgttaacatgacaaactatatgttgtttcta-------gaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
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-----attactattctgatgcttgtgttgtgcacattaactatta-gatcccttttatttggttacaaattaagggcaagtattgatctctatgctatgcta-gtagGCTGGGAACTTTGTAAAAGATGAAGTATGGCATGCCTTAATTGTTGTGATAAGCAATGCTTCTGAGCTTCATGGATATACAGTAAGAGCATTATACAAGG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 9
tcacctttgaaactattttcttttttttttga---gcatttgttaacatgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
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-tgttttggtgcttgctgtctccactctccacattgagctattcaatttagttatatatgtat-attgggtgcatgtactgatctctattctatg-ttagtagGCTGGAAATTTTGTAAAAGATGAAGTATGGTATGCCTTAATTGTTGTGATAACCAATGCTTCTGAGCTTCATGGATATACAGTAAGAGCATTATACAGAG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G03800.1 (Glycine max), 3'ss of exon 8
-----tcacctttgaaactattttcttttttttttgagc-atttgttaacatgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
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gtgatttatgttttgtgct-tgctgtttccacattgagctattcaatttagttataaa-tgtatattgggt---gcatgtactgatctctattctatg-ttagtagGCTGGAAACTTTGTAAAAGATGAAGTATGGTATGCCTTAGTTGTTGTGATAAGCAATGCTTCTGAGCTTCATGGATATACAGTAAGAGCATTATACAGAGMapped 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|71889458|gb|DT038513.1|DT038513EST: CCCCTGAGAAAATATGGTACATTGATCAGATGCTCAAGGTTCTTTCTGAG GCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATA
genomic: CCCCTGAGAAAATATGGTACATTGATCAGATGCTCAAGGTTCTTTCTGAGgtatgcatta ... cacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATA
EST:
gi|110416791|gb|EC982796.1|EC982796EST: CCCCTGAGAAAATATGGTACATTGATCAGATGCTCAAGGTTCTTTCTGAG GCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATA
genomic: CCCCTGAGAAAATATGGTACATTGATCAGATGCTCAAGGTTCTTTCTGAGgtatgcatta ... cacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
tactaat putative branch site (score: 1)
aactatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcacctttgaaactattttcttttttttttgagcatttgttaacatgacaaactatatgttgtttctagaaagtactaatctctatgctacacttcatagGCTGGAAATTTTGTAAAAGATGAAGTCTGGCATGCCCTTATTGTTGTAATAAGCAATGCTTCTGACCTCCATGGATATACAGTAAGGTCCCTTTACAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - gaaacta
- - - - - - - - - - - - - - - - gcatttg
- - - - - - - - - - - - - - - - - - - - - - - gacaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctatgct