Sequence
atgc intronic sequence ATGC exonic sequenceGGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatggacttcagcagttgttttgttattt...
Basic information
species | Glycine max |
transcript | GLYMA13G43630.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g08560.2 (Oryza sativa), 5'ss of exon 2
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgcct-tctgcaaagttttataattaaagggatcatggacttcagcagttgttttgttattt--
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AGAACCAAGGAGGACAATGAATGCGAGTGAATGTGTTGCCAGGGGATGTGCGCTGGAGTGTGCTATCCTTAGTCCCACTTTTAAAGTGCGAGAGTTTCAGgta--tgtgcccgctttcaccctgctgccttctctgctttggctatctgcacaatacattaat-agaaatcttgctgcttcatgccttaaaatctctaattaa
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G063676_T01 (Zea mays), 5'ss of exon 2
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatggacttcagcagttgttttgt-tattt---
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GGAGCCGAGACGAACCATGAATGCAAGCGAGTGTGTTGCGCGGGGCTGTGCTCTCCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGGGAATTCCAGgtataatctcattttttt-tcttcctatgttgttttaag---ctatggcagggttagattattctagtgccggtctatatgatagactgtcgtctatgctccgt
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G361605_T02 (Zea mays), 5'ss of exon 4
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgcc-ttctgcaaagttttataattaaagggatcatgga--cttcagcagttgttttgttattt
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GGAGCCAAGGCGAACCATGAATGCAAGTGAGTGTGTTGCACGAGGATGTGCTCTTCAGTGTGCTATGCTCAGCCCCACTTTCAAAGTGCGGGAATTCCAGgtttgagctcatctttttatctggtttaagctaccgaatggttatattattccactgccggtctgtcacactaatggatactaaaataattgcatactga---
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcc----cccggct---gtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatgg--acttcagcagttgttttgttattt-----------------
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GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtac-ttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 2
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaa-------attttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatgg--acttcagcagttgttttgttattt-----------------
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GGAGCCCAGGCGGACAATGAATGCAAGTGAGTGTGTGTCAAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaattggtgcatatctacgcttaagtaaatgtcgttattttcatgtac-ttgtaagcaactcgagaacttttatactctagattatctgactagtcatattgtgatttattttttgttctcttag
upper sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 1
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatggacttcagcagttgttttgttattt
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GGAACCTAGGCGGACAATGAATGCAAGTGAGTGTGTGGCCAAGGGCTGTGCTCTACAATGTGCAATTCTTAGCCCAACATTTAAAGTGCGAGAGTTTCAGgtaaaactcctttcaacttaggttgtatcttattttctttatttattgaagtgaaatatgtgttgcttttttacggctattgagttaaatttccttggttMapped 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|193360083|gb|FK326785.1|FK326785EST: CATTGCAGTGTGCAATTCTCAGTCCAACTTTTAGAGTACGGGAGTTTCAG GTCAACGAAAGCTTTCCTTTCTCAATTTCTCTCTCGTGGAAAGCTCCAAGT
genomic: CATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttc ... tgatatgaagGTCAACGAAAGCTTTCCTTTCTCAATTTCTCTCTCGTGGAAAGCTCCAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcccccggctgtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatggacttcagcagttgttttgttattt
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