Sequence
atgc intronic sequence ATGC exonic sequence...atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcattatttctttaacttgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G01060.3 (Glycine max), 3'ss of exon 9
----atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcattatttctttaacttg-tcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
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ttacagttaaatttggaataatcttagtagatttattttgtacataatatcaattatttgact-----tttttctagttcctaatctttattttatttttctcagGATGAATCTGATGTAGTTTTTAGGGCAACTTCAGGGAAATGGCGTGCAGTTGTAGTAGAAATCTCTAGGATGCACAAAACCGGTCGCCCGGTGCTTGTTG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 9
---atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcattatttctttaacttgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
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ttactgttaatcttagt-agatttattttctacataatataaattatctttataaattatttgatgtttttct-agttcctaatcttaaatttc-tttctcagGATGAATCTGATGTAGTTTTTAGGGCAACTTCAGGGAAATGGCGTGCAGTTGTAGTAGAAATCTCTAGGATGCATAAAACCGGTCGCCCAGTGCTTGTTG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G01800.2 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------------------------atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcat----tatttctttaact---tgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
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gtgagatctgttaaagtggaaaaatgttaaacatccatgttagttctggaaggacattgtatgctgtactagtttccgattttgatattttcttttcaaaaaaaaaacgtctctctttccctgtcttatacctttttaaatcactttcagGATGAGTCAGATGTGGTTTTCAAGGCAGTCAATGGCAAATGGCGGGCAGTAGTAGTGGAGATCTCTAGAATGCACAAGACAGGTAGGGCTGTGCTAGTTG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 8
atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcat----tatttctttaact---tgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
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------aggacattgtatgctg-tactagtttccgattttgatattttcttttcaaaaaaaaaacgtctctctttccctgtcttatacctttttaaatcactttcagGATGAGTCAGATGTGGTTTTCAAGGCAGTCAATGGCAAATGGCGGGCAGTAGTAGTGGAGATCTCTAGAATGCACAAGACAGGTAGGGCTGTGCTAGTTGMapped 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|110687042|gb|EE064104.1|EE064104EST: ACAAGCTTAAAGTTACAATTGTGCCCACAAACAAACCCATGATAAGAAAG GATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGAAAATGGCGGGCAGTG
genomic: ACAAGCTTAAAGTTACAATTGTGCCCACAAACAAACCCATGATAAGAAAGgtttgttctt ... aacttgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttcttcggttgatggcctattgagtccctcattatttctttaacttgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
ctttaac putative branch site (score: 3)
tttcttta CT-rich tract
attatttctttaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatagatgccattcagcttgaatacaaatacttaatgtataactttttttcttcggttgatggcctattgagtccctcattatttctttaacttgtcagGATGAGTCGGATGTAGTTTTCAGGGCCACTACAGGGAAATGGCGGGCAGTGGTGGTTGAAATTTCTAGAATGCACAAGACAGGTCGTCCAGTGCTTGTTG
- - - - -ccattca
- - - - - - - - - - - atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatggcc