Sequence
atgc intronic sequence ATGC exonic sequence...catactcctaagtctgataaaacccgtcggtttggattctaattaaagcttccatggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G34370.1 (Glycine max), 3'ss of exon 5
-----catactcctaagtctgata-aaacccgtcggtttggattctaattaaa-gcttccatggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
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aatgacgtaaacatgtttctgatgtatagccgaatagttaacttctctcgaaatgaatgcagggtagt----attgactaactcatg--gaaataaatgca-tgcagAGCATAAAGAAACCAAAGCTATTCTGGGTCTCAGCTGGAGCTCCTCTTATGTCTGTCATCATCTCTACCCTCTTGGTTTTTGCAATTAAAGCTCAAAATC
upper sequence: Vv01s0011g04980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G34360.1 (Glycine max), 3'ss of exon 5
catactcctaagtctgataa-aacccgtcggtttggattctaatta--aagcttccatggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
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-atccctccctccctcctgttaacaaaaaaattaacattctaataactaacatttgttgatgaaaaacaaaactaacttg-taccaaaataaatatg-tgcagAGCATAAGGAAACCAAAGCTATTCTGGGTCTCAGCTGGAGCTCCTCTTGTGTCTGTCATCATCTCTACTGTCCTCTCTTCTGTAATCAAGGCTCAACTTC
upper sequence: Vv01s0011g04980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G02080.1 (Glycine max), 3'ss of exon 5
----catactcctaagtctgata-aaacccgtcggtttggattctaattaaagcttccatggtatttgagaat-accaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
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caaacaaaaatattaaaatgacataaacatgtttattataacttctctcaaaacg---aaggcaggggaggattgactaactcatg--gaaataaatgca-tgcagAGCATAAGGAAACCAAAACTATTCTGGGTCTCAGCTGGAGCTCCTCTTATGTGTGTCATCATCTCTACCCTCTTGGTTTTTGCAATTAAGGCTCAAAATC
upper sequence: Vv01s0011g04980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G23090.1 (Arabidopsis thaliana), 3'ss of exon 5
catactcctaagtctgataa--aacccgtcggtttggattctaatta-aagcttccat--ggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
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-aaaaagttaaatat-ataattaatttaatgacttaaatagctattacatactttgatctggtttcctcttaagtaataataagaatggaa---atttaacgcagAGCATGAAGAAGCCGAAGCTGTTTTGGGTCTCAGCCGGAGCACCACTTCTTTCCGTTATCGTCTCTACACTTCTTGTCTTTGTTTTCAGAGCCGAGCGTCMapped 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|34551025|gb|CF519225.1|CF519225EST: TAGTGATGGGGTTCTGCTTCCTATCGCTGCTTCTGCTGGCAAGACACGTT AGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCT
genomic: TAGTGATGGGGTTCTGCTTCCTATCGCTGCTTCTGCTGGCAAGACACGTTgtacgttatt ... tgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcttccatggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
aattgat putative branch site (score: 4)
aaattgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catactcctaagtctgataaaacccgtcggtttggattctaattaaagcttccatggtatttgagaataccaaattgatattggattgtgtgcaatgcagAGCATGAAGAAACCAAATCTGTTCTGGGTCTCAGCCGGAGCTCCTCTTGCTTCTGTCATCATCTCGACCCTATTGGTTTTCGCATTCAAAGCTCAACATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - ctcctaa
- - - - - - - - -taaaacc
- - - - - - - - - - - - - - ggtttgg
- - - - - - - - - - - - - - - - - - - - aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggattg