Sequence
atgc intronic sequence ATGC exonic sequence...atttttctcatgcatgcttcccgaaaggcaaagcatgatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaactttatgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os01g74610.1 (Oryza sativa), 3'ss of exon 14
atttttctcatgcatgcttcccgaaaggcaaagcatgatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaactttatgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
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------gtaataccttccatcagaataaaagaacaa----tgtt--cttagtacatcagtaatattt-gtctctaagc--ttatgttcctgtgtgtacagAACGGCGCAATAGCAGAGGCGATCCACACTTGGAAAAGCAATTTTGACAAGGAGTTTGAGGGGGTGGAGGAATGCCCAATCTGTTACAGCATTCTGCACA
upper sequence: Vv06s0004g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G123660_T02 (Zea mays), 3'ss of exon 16
atttttctcatgcatgcttcccgaaaggcaaagcatgatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaactttatga-tgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
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---------gta-attttactcagaacacagataaagagtggttgctctgtgacgtt---------aaggatgtagctaagctgattacttgtctctgcagAATGGCGCGATAGCAGAGGCGATCCGCACGTGGAAGAGCAATTTCGACAAGGAGTTTGAGGGCGTGGAGGAGTGCCCAATCTGTTACAGCATTCTCCACA
upper sequence: Vv06s0004g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA02G39910.1 (Glycine max), 3'ss of exon 9
atttttctcatgcatgcttcccgaaaggcaaagcat-gatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaac--tttatgatgc-acagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
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----tatacacctctgaaattcagtggacaatggatcaatgtgagaattaataattatcagagcaggtttgcttaaagttaacaatccttttctggtcctgcagAATGGAGCTTTAGCAGAAGCTATAGGAATTTGGAAGCGCAATTTTGATAAAGAATTTGAAGGTGTTGAGGAGTGCCCAATCTGTTACAGTGTAATCCACA
upper sequence: Vv06s0004g07570.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G58410.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------------------------------------------------atttttctcatgcatgcttcccgaaaggcaaagcatgatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaactttatgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
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gtactgtactttatgagtcatatcgatctttgttaacctgaatgatatctccagttccatcatgtagaccatatatgattaatcttgtcctctccatctaagcccaaattgagtgcctgtcttgattgaatgttttt-cttcttcttctttttctaatgtgttgttactgaaagcagAATGGGGCTCTGGCGGAGGCGATAAGGATATGGAAGCGAAATTCGGACAAGGAATTTGAAGGAGTAGAAGACTGCCCGATATGTTACAGTGTGATACACAMapped 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|33404300|gb|CF209927.1|CF209927EST: TGAAGCAGAGGAAATGGTTAATGTCTATGACGTCATTTGTCCGTAATCAG AATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAG
genomic: TGAAGCAGAGGAAATGGTTAATGTCTATGACGTCATTTGTCCGTAATCAGgtaattgcta ... tgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttcaaacaattgtactacaaagactgtaagtgattaaactttatgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
attaaactttatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttttctcatgcatgcttcccgaaaggcaaagcatgatctgttggcttcaaacaattgtactacaaagactgtaagtgattaaactttatgatgcacagAATGGAGCACTGGCTGAAGCTATACGGATATGGAAGAACAATTTTGACAAGGAATTTGAAGGTGTTGAGGAGTGCCCCATCTGTTACAGTGTGATCCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - ctcatgc
- - - - - - - tgcttcc
- - - - - - - - - - - - - - caaagca
- - - - - - - - - - - - - - - - - - - - tgttggc
- - - - - - - - - - - - - - - - - - - - - - - - - aaacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaagac