Sequence
atgc intronic sequence ATGC exonic sequenceCACTGGTGGAGTTCATTTTGATCTTGTCAAGCGTGTTTTGCGGGACATTCATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtttttcactgatctcatgttataatttttttaggacttttgaaaacttgcatctgtaagactaaggcacctgctataatttttaactattgttttgtttccttttgcag
Basic information
species | Glycine max |
transcript | GLYMA17G09080.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09080.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G147430_T02 (Zea mays), 5'ss of exon 4
CACTGGTGGAGTTCATTTTGATCTTGTCAAGCGTGTTTTGCGGGACATTCATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtttttcactgatctcatgtta--taatttttttaggacttttgaaaacttgcatctgtaagactaaggcacc---tgctataattttta---actattgttttgtttccttttgcag
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CACTGGTGGTGTTCATTTTGACCTAGTCAAGAGGGTTTTAAGGGATATACAGCGAGCTGGCCAGGAGCCTGAAGAAATAATTCATCAGATCTCTGAAACGgtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcag
upper sequence: GLYMA17G09080.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G73980.1 (Arabidopsis thaliana), 5'ss of exon 4
CACTGGTGGAGTTCATTTTGATCTTGTCAAGCGTGTTTTGCGGGACATTCATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgttttt-cactgatctc----atgttataattttt---------ttaggacttttgaaaacttgcat-ctgt-----------------------aagac-taaggcacctgctataatttttaactattgttttg--tttccttttgcag---------------------------------
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CACTGGTGGAGTGCATTTTGATCTTGTTAAGCGTGTTTTGCGGGACATTCAACGTGCTGGCCAGGAACCTGAAGAAATAATCCATCAGATATCTGAGACGgttttcatgctagtctttgctatcttttattttttagcccagattaatcacccttgctgtcatgcctgctgtttggagttgcttcaaatatggaaaaaacatgaaacgatgtctcctactcctactggatgttttgagtttttttttacagtaaaattttgcttatgtttttttctccaaccag
upper sequence: GLYMA17G09080.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 5'ss of exon 3
CACTGGTGGAGTTCATTTTGATCTTGTCAAGCGTGTTTTGCGGGACATTCATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgt-ttttcactgatctcatgttataatttttttaggacttttgaaaacttgcatctgtaagactaaggcacctgc-tataattttta----actattgttttgtttccttttgcag--
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TACTGGTGGAGTACACTTTGACCTTGTCAAAAGGGTTTTACGGGACATTCAACGTGCTGGCCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtgttttcacttatactatgttagaaagttttctttact--taatgaactgttatggtagcccttaattattcatataaagcatttattgtacttctcatcagctttcttttacacagMapped 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|11274567|gb|BF324909.1|BF324909EST: ATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACG GTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCAT
genomic: ATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtttttcact ... ccttttgcagGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACTGGTGGAGTTCATTTTGATCTTGTCAAGCGTGTTTTGCGGGACATTCATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtttttcactgatctcatgttataatttttttaggacttttgaaaacttgcatctgtaagactaaggcacctgctataatttttaactattgttttgtttccttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA