Sequence
atgc intronic sequence ATGC exonic sequenceAGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
Basic information
species | Glycine max |
transcript | GLYMA11G06650.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g40490.1 (Oryza sativa), 5'ss of exon 10
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtg---ttaatgtgtttaacttcccat-ttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
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GGAATTTTTTGAAGGTCTGAACATGAAAGTGGAGCAACAAGTTCCAATACTCTTGGTTGAGAGACAGGCTCTAAATGAGGCTTTAGAAACTGAGAAAAATgtaagtggcatgaacatgagagttttgttatgtttttgcgcagaatgttagtatattttgaacttacaaggttttc----aat-ttctgtcatctcag--------------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g42820.4 (Oryza sativa), 5'ss of exon 10
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
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AGAATTCTATGAGGGTTTGAACATGAAAGTGGAACAACAAATTCCCTTGCTGTTGGTTGAGCGACAAGCTTTAAATGAAGCCATGGAGGCCGAGAAAACTgtaagtga-aatg-----atcattttataatattctaacagtaatgtacatt--atttaacttattgttcctttgacctccttaatag--------------------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G342105_T02 (Zea mays), 5'ss of exon 5
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
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AGAATTTTATGAGGGTATGAACATGAAAGTAGAGCAACAAGTTCCCTTGCTTTTGGTTGAGCGACAAGCTTTAAATGAAGCCATGGAAGCAGAGAAATCTgtaagtgacaccctttcctttattatgtggtatatataacatatatctaatgtactctcgtcgattag----------------------------------------
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 8
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttctagtgtcc---tgtcgaaatgttcttttatttctcactattgaatgtag
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TGAATTTTACGAAGGCTTACATATGAAAGTGGAACAGCAAATTCCTATGCTTTTGGTGGAGAGATCAGCTCTAAACGAAGCTATGGAAGGAGAGAAACACgtaaa-------------acctctatatcttattgatactatgtttatactctctctttctctctcgctcatttgtttcaacctacttctatctaattttgctgcag----
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 9
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttc-tagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag--
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AGAATTTTATGAGGGTTTGAATATGAAAGTGGAGCAGCAAGTCCCTCTTCTCTTGGTTGAGAGACAAGCACTAAATGAGGCCATGGAGGGAGAAAAGAATgtaagggctaatgcattgaagtgatcattt--ttcatagcaacaggtactttcttgtcttttattttaagcttccatcaagtttgaatgtt-ctctttattttatgggcag
upper sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 12
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaact--tcccatttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
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AGAATTTTATGAGGGTTTGAATATGAAAGTGGAGCAGCAAATCCCTCTTCTCTTGGTTGAGAGACAAGCACTAAATGAGGCCATGGAGGGAGAAAAGAGTgtaaggactaatgcattgaagtgatcatatttcataccaacaggaattttctcgtcttgtattttaagtttccat-gaagtttgaatgttctctttattgt-atgggcagMapped 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|192300647|gb|FG991074.1|FG991074EST: TCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAAT GGTCATCACCACTTACCCGAAACTAGAGGACTATGCTTGTCAGAAGAGCAA
genomic: TCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgtta ... ttgaatgtagGGTCATCACCACTTACCCGAAACTAGAGGACTATGCTTGTCAGAAGAGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAATTTTATGAAGGTTTAAATATGAAATTGGAGCAACAAATTCCTATGCTCTTGGTTGAGAGACAAGCGCTGAATGAGGCTATGGAGGGAGAAAAGAATgtaagtgttaatgtgtttaacttcccatttcattcatggaatgctgttatttctattctttctagtgtcctgtcgaaatgttcttttatttctcactattgaatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA