Sequence
atgc intronic sequence ATGC exonic sequence...aaattatgggagaattttatttttatttttatttctaaattctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g51100.2 (Oryza sativa), 3'ss of exon 4
-----aaattatgggagaattttatttt--tatttttatttctaaattctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
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gtaaggtgctatgctatgtcttttttataatattacaatcacaatgtcggatgagacaattttttttttactctggtagtaacattttat---gattattgtttcagTACATATCATTGGTGAATCCATCAATTAGTGTTGATATTGAGATTCTGCGAGATGGCTACGAGGCATTTGCTATGTACTGTTTTGGGCGGTATCTAGTTG
upper sequence: Vv03s0038g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G00300.1 (Glycine max), 3'ss of exon 2
aaattatgggagaattttatttttatttttatttctaaattctgtattttcttcttttctt-taatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
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--gtaagttcatcatcatacacttgtttttttttctttttacattatattcatatcatatgatattattatttcaattctgacccccaaccccaacca--gTTTGTATCATTGGTCAATCCATCAATCAGTGTTGATTGCGAGATTCTAAGGGACTGCTACGAATCCTTTGCCATGTATTGCTTTGGAAGATACCTTGTTG
upper sequence: Vv03s0038g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G00250.1 (Glycine max), 3'ss of exon 2
aaattatgggagaattttatttttatttttatttctaaattctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
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----------gtaagttcgtgttctacattacattcatatgatattatttcaattctaactcactttcctcttt-cccccaaccccaacca--------gTTTGTATCATTGGTCAATCCCTCAATCAGTGTTGATTGCGAGATTCTAAGGGACTGCTACGAATCCTTTGCCATGTATTGCTTTGGAAGATACCTTGTTG
upper sequence: Vv03s0038g03670.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G38360.2 (Arabidopsis thaliana), 3'ss of exon 2
aaattatgggagaattttatttttatttttatttctaa---attctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtcta-tagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
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-aatctcatcgaatatttacttgtattgtgctcgtcaacggatcgtcaactgaatgtgtttccctaa---gatatctgttcctaattgtgtttgtttgtaacagTTTGCATCACTTGTTAAACCATCCATCAGTGTTGACTGTGGGATTCTTCGAGACTGCTATGAATCCTTTGCCATGTACTGTTTTGGTAGATACCTTGTTGMapped 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|37183882|gb|CF603236.1|CF603236EST: AGTTTTTGATCGGAGTCATCTTAATGGTTCCTTGCTATGCAATTGAATCG TTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGT
genomic: AGTTTTTGATCGGAGTCATCTTAATGGTTCCTTGCTATGCAATTGAATCGgtaagccagt ... atgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGT
EST:
gi|161714620|gb|FC064217.1|FC064217EST: AGTTTTTGATCGGAGTCATCTTAATGGTTCCTTGCTATGCAATTGAATCG TTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGT
genomic: AGTTTTTGATCGGAGTCATCTTAATGGTTCCTTGCTATGCAATTGAATCGgtaagccagt ... atgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttcttcttttctttaatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
ccctaac putative branch site (score: 2)
ttcttttctttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattatgggagaattttatttttatttttatttctaaattctgtattttcttcttttctttaatggaatatctacccctaacatgggttatgtctatagTTTGTGTCATTGGTGAATCCATCAATCAGTGTTGATTGTGCAATACTACGTGACTGCTATGAAGCCTTTGCCATGTATTGCTTCGGGAGATACCTTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- -ttatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgggt