Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca...
Basic information
species | Glycine max |
transcript | GLYMA13G36940.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g60000.1 (Oryza sativa), 5'ss of exon 3
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaa-----aaaaagattgcttgtt--gctgaggtagtgcaaaa-------taattgaagttttttttcatcagttaacattactca-----------------------------------
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GGAGAATTTCAATGAGAGAGTTTTGCCTTCAATCATTCATGAAACACTCAAAGCGGTGGTTGCGCAGTACAATGCCAGTCAGCTAATCACACAGAGAGAGgtactgt-catcatatctatctgtgtttaaatatctaatatgtttccatggtatgctatgctagtttaagagctaatatagtaggatatttagtttaagagttaatatagtaggatatatgctaataattactcctttatccaacacag
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g62490.1 (Oryza sativa), 5'ss of exon 3
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagt-taacatt--actca----------------------------------------------------
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GGAGAATTTCAATGAGAGAGTTTTGCCTTCAATCATTCATGAAACACTCAAAGCGGTGGTTGCACAGTACAATGCCAGTCAACTAATCACACAGAGAGAGgtactgt-cttatcatatctatctgtgtttaaatatc-taatatgtttccatggtatgctatgctagtttaagagctaatatagtagtatgatatttagtttaagagctaatatagtaggatatatggtaataattattcctttatccaacacag
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: AC217358.3_FGT005 (Zea mays), 5'ss of exon 3
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagca---------aagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcat-cagttaacattact-ca-
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GGAGAACTTCAATGAGAGAGTTCTGCCTTCAATCATTCATGAAACACTCAAAGCTGTGGTTGCTCAATACAATGCCAGCCAGCTGATCACCCAGAGAGAGgtaccattcatgcgtctagacacgatgttccccatataacaactgtcttgctagg-attggatgagattaggatatgttaacagttcattcatgcattcgattccgatgcag
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G03860.3 (Arabidopsis thaliana), 5'ss of exon 4
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca
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CGAGAACTACAGCGAAAGGGTTCTTCCTTCCATCATCCATGAAACCCTAAAAGCAGTGGTAGCTCAGTACAATGCAAGCCAGCTCATTACCCAGAGAGAAgtacgtatctcaacattctttttctacaacttttctgctcttttgtttctaa--tggtggactctgtttactctctcctctag-----------------
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G20530.2 (Arabidopsis thaliana), 5'ss of exon 5
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaagg-agcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca--
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TGAGAATTACCGCGAGAGAGTCTTGCCTTCTATCATCCACGAGACCTTGAAAGCTGTGGTTGCTCAGTACAACGCAAGCCAACTTATTACTCAGAGAGAGgttagccaactggctgtaaata--cattttatt----gattcctcttcaatggtaaattgatgtcccttttaatggatatatgtttttttggtgtttttcaag
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: AT4G28510.1 (Arabidopsis thaliana), 5'ss of exon 4
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca-
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TGAGAACTACAGCGAGAGAGTTCTACCTTCTATAATCAACGAGACTTTGAAAGCTGTGGTTGCTCAGTACAATGCAAGCCAGCTTATTACTCAGAGAGAGgtataca----aatgactgtgaatatatgatcatcttttttctc-tttcttagtaagtg--aagttcttaaagatttattccg------ggcttctctcag
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv19s0085g00730.t01 (Vitis vinifera), 5'ss of exon 5
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggta---gtgcaaaataattgaagttttttttcatcagttaacattactca-
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TGAGAACTACAATGAAAGAGTCCTGCCTTCAATAATTCATGAAACTCTGAAAGCTGTGGTTGCACAGTATAATGCTAGCCAGCTTATTACTCAGAGAGAGgtaggt--ctgaactgtctttcttttaaacagttttaattgcaaatt--tgaagtatgagtatcagataaatagtgatagctgtttaagattaggattttgttt
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv15s0048g02350.t01 (Vitis vinifera), 5'ss of exon 5
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaat--aaccatttaaaaaaaagattgcttgttgctgaggtagtgca-aaataattgaagttttttttcatcagttaacattactca--
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TGAGAACTACAATGAAAGAGTCCTGCCCTCAATAATTCATGAAACTCTGAAAGCTGTGGTTGCACAGTATAATGCTAGCCAGCTTATTACTCAGAGGGAGgtaggtaaccgtctttcttttaaacaattttaattgcaaatt---tgaagtatgagtatcagataaatagtgataactatttaagattag--gattttgttttgc
upper sequence: GLYMA13G36940.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S41_59V6.1 (Physcomitrella patens), 5'ss of exon 3
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca
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ACAAGACTATGCGGAACGAGTTCTGCCTTCTGTTGTTCAGGAAACTTTAAAGGCCGTTGTTGCTCAGTACAACGCCAGCCAGCTCATTACGCAGCGTGAGgtaggttgtggtggactgttgatcttttttgaattttgtgtagagctgttgccaagagtgatgatgacgaatatgcacttgcgtgaaaatgaacaaaacaMapped 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|192307653|gb|FG999692.1|FG999692EST: AAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAG GCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTC
genomic: AAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagca ... atctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAATTATAATGCAAGGGTTTTACCTTCAATCATACATGAAACTTTGAAAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagcaaagcaaaaataaccatttaaaaaaaagattgcttgttgctgaggtagtgcaaaataattgaagttttttttcatcagttaacattactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaaa