Sequence
atgc intronic sequence ATGC exonic sequenceATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgtttttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaattatagttttgttcctccttctatttacttaattggtgccttttttatactag
Basic information
species | Glycine max |
transcript | GLYMA02G05980.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05980.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os10g03400.2 (Oryza sativa), 5'ss of exon 3
ATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgtttttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaat-tatagttttgttcctccttctatttacttaattggtgcctt-ttttatactag
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GTTTTTGAAGGCAAGAAAGTTTGATGTTGAGAAGGCAAAGCAAATGTGGGCTGACATGTTGCGGTGGAGAAAGGAATTTGGTGCAGATACCATTCTTGAGgtaattgcatctatcaa-------ataggttaaggttaaactatatttggac-taatccttttatggttgatacatacctttgtttataag-cagttgacacatttttcatcaaattctatctcag
upper sequence: GLYMA02G05980.1 (Glycine max), 5'ss of exon 2
lower sequence: AT4G36490.1 (Arabidopsis thaliana), 5'ss of exon 2
ATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgtttttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaattatagttttgttcctccttctatttacttaattggtgccttttttatactag
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ATTTTTGAAGGCTAGAAAATTTGATCTTGAGAAAACCAAACAGATGTGGACTGAAATGCTTAGATGGAGGAAAGAATTTGGTGCTGATACTGTCATGGAGgtatgattattattctagaggaacgttttgcagattt-----gaaaatggtctc---tttgagtagtactaacattctcttctttggttttgtatatttttaag--------------------
upper sequence: GLYMA02G05980.1 (Glycine max), 5'ss of exon 2
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 5'ss of exon 3
ATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgtttttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaattatagttttgttcctccttctatttacttaattggtgccttttttatactag
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GTTTTTGAAGGCTAGAAAATTTGATCTTGAGAAAACAAATCAAATGTGGTCTGACATGCTCCGATGGAGGAAGGAGTTTGGTGCTGACACAGTTATGGAGgtg--tgaattcataga-----gtttctttatgaatgcaagaaggtgc-attgtggttgaaaacaatgttcttactcttttttttttctttgtatct-cttag---------------------
upper sequence: GLYMA02G05980.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0023g02400.t01 (Vitis vinifera), 5'ss of exon 2
ATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgttt----ttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaattatagttttgttcctccttctatttacttaattggtgccttttttatactag
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ATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAGgtattaatgaaagaaactggcggttgatgcttg-aaaagtttggatgcatgacaatgagatcctctcttg---agtttctcatcttttgcttctgttatttttgcaag--------------------Mapped 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|192293921|gb|FG986130.1|FG986130EST: CTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAG GATTTTGAATTCAAGGAACTCGAAGAAGTCCTGCAATACTATCCTCATGGA
genomic: CTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgt ... tttatactagGATTTTGAATTCAAGGAACTCGAAGAAGTCCTGCAATACTATCCTCATGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAGgtatttgtgtttttgaacaatgatatttgtgagaattcaggggaatgtgacccttattctcacttatttaattatagttttgttcctccttctatttacttaattggtgccttttttatactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA