Sequence
atgc intronic sequence ATGC exonic sequencegtttgttaatctgttcttgctaaacttaattttggctaccctatggcttttcaagagttaaattaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g08170.1 (Oryza sativa), 3'ss of exon 2
gtttgttaatc--tgttcttgc-taaacttaattttggc-taccctatggcttttcaagagttaaat---taattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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gtacagtgcttgtaattgttgcatatacttaaaattggtgtttatgatggcgtctcttgatgaaaatggttaattgttggtttatgcagCTCGACATTTATTCTTTGTCGAGGAAATGGAAGGAGTTAGTCGATAAGGCTCGAGCGAAGCAGCTACAGCCCCATGAATACAATTCTG
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G036534_T02 (Zea mays), 3'ss of exon 3
gtttgttaatctgttcttgctaaac--ttaattttggctaccc-tatggcttttcaagagttaa--attaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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----gtcaaacactttaccatgcacgatgaatgctgatttttgataattttttttaaaaataaatggttacctggtggtttatgcagCTTGACATTTATTCATTGTCAAGGAAATGGAAGGAGTTGGTTGATAAGGCGCGAGCAAAGCAGCTGCAGCCCCATGAGTACAACTCTG
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G165176_T01 (Zea mays), 3'ss of exon 4
gtttgttaatctgttcttgctaaacttaattttggc-taccctatggcttttcaagagttaa--attaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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gtcaaacactttac-catgcacaa-tgagtgttgatatttttgatgattttttttaaataaatggttacttgctggtttatgcagCTTGACATTTATTCATTGTCAAGGAAATGGAAAGAGTTAGTTGATAAGGCGCGAGCAAAGCAGTTGCAGCCCCATGAGTACAACTCTG
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G35960.2 (Glycine max), 3'ss of exon 3
------------------------gtttgttaatctgttcttgctaaactt----aattttggctaccctatggcttttcaagagttaaattaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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gtttaccaatactctaatttaagcagcttctaatctccccacctcctgcttttctaatataagatggttctttattgtaaaatggtatatttatttgatgtatattgtagATTGATGTCTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTG
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G31630.1 (Glycine max), 3'ss of exon 3
------------------------gtttgttaatctgttcttgctaaacttaattttggctaccctatggcttttcaagagttaaattaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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gttttccaatactctagtttaagcagcttctagtccccccatctcccacttttctaatataagatggttctttattgtaaaatggtatatttgatgtatattgtagATTGATGTCTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGATAAGGCCAGAGCGAAGCAGCTTCAACCTCATGAATACAACACTG
upper sequence: Vv18s0072g01000.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G34430.1 (Arabidopsis thaliana), 3'ss of exon 2
-gtttgttaatctgttcttgctaaacttaattttggctaccctatggcttttcaagagtta--aattaattg--caatttattat----agGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
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gttcttttcttttgtatgctttataagagattttgagtttactctgtattcaaaaccggtatcagtgggttgttctatcttttgtaaacagGTTGACATTTATTCGTTATCTAGAAAATGGAAAGAATTGGTTGATAAGGCTCGAGCCAAGCAGCTGCAGCCTCAGGAGTACAACACTGMapped 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|110383970|gb|EC948379.1|EC948379EST: TGGCCATAGATGGTGGGTTGATTACACCAGTGCTTCAGGATGCTGATAAG GTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCC
genomic: TGGCCATAGATGGTGGGTTGATTACACCAGTGCTTCAGGATGCTGATAAGgtttgttaat ... tttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttggctaccctatggcttttcaagagttaaattaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
aattaat putative branch site (score: 3)
ttttcaagagttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttaatctgttcttgctaaacttaattttggctaccctatggcttttcaagagttaaattaattgcaatttattatagGTGGACATTTATTCATTGTCAAGAAAGTGGAAGGAGTTGGTTGACAAGGCCCGAGCAAAGCAGCTGCAACCTCATGAATACAATACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC