Sequence
atgc intronic sequence ATGC exonic sequenceTTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctctgttctccttaaccttattgttttccttcccttctcaagctaattggattttataatttctttaacctgtctgtgcacctgaggatcttt...
Basic information
species | Glycine max |
transcript | GLYMA08G20610.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 2
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctctgttctccttaaccttattgttttccttcccttctcaa-gctaattggattttat--aatttctttaacctgtctgtgcacctgaggatcttt------
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TTCAATGTTTCTGGATTGGAGAACTTCATGAAGGAAGTTAAAATGGGCGAATGTGGGCTTTCATATGCTGTTGTGTCAATAATGGGTCCACAAAGTAGTGgtatggtgttttttttttcctttcatcatttgctctatctgttttcaatgaataatatattttatcccagcgccattgttcatcaattcctttttacatttttttccag
upper sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 2
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 1
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgct--ctctgttctcc-ttaaccttattgttttccttcccttctcaagctaattgg--attttataatttctttaacctgtctgtgcacctgaggatcttt
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TTCAACGTCTCCGGATTGGAGAACTTCATGAAGGATGTCAGATTGGGTGAATGCGGGCTGTCCTATGCTGTTGTATCAATAATGGGCCCGCAAAGTAGTGgtatggtgtctctcttttccgttgttttgattctgttcactgcatgcttcctttgtctgattacaccatggtttctctcattttcttgtagggaaaagta-----
upper sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 2
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctctgttctccttaaccttattgttttccttcccttctcaagctaattggattttataatttctttaacctgtctgtgcacctgaggatcttt----
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TTTAATGTTTCTGGGGTTGATCATTTCATCAAGGAGGTTAAATTGGACGAATGTGGTCTTTCATACGCGGTTGTCTCGATTATGGGTCCACAAAGTAGTGgtatgtatcaaa---tccttgaatgtaaaaagtggcttc---tttggaatctatt---ttttgtatattggctgattt-tatgtcattctggttgaatttgcag
upper sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 2
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctct-ctgttc--tccttaaccttattgttttccttcccttctcaagctaattggattttataatttctttaacctgtctgtgcacctgaggatcttt
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TTTAATGTTCATGGACTTGAAAATTTTATGAAGGAGGTGAAACTGGCTGAATGTGGTCTTTCATATGCTGTAGTTTCCATCATGGGCCCACAGAGTAGTGgtatgaactgctaatccatgcccaatattattatttgttgtgttttattaagtgaggcatttttgttggagattacaattgagttatccaattttcactt---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|209726345|gb|BW680244.1|BW680244EST: ATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTG GCAAGAGCACGCTATTAAATAATTTGTTTGGTACCAACTTCAGAGAGATGG
genomic: ATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctc ... ctctgggcagGCAAGAGCACGCTATTAAATAATTTGTTTGGTACCAACTTCAGAGAGATGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCAATGTTTCTGGGCTTGAAAGTTTCATGAAGGAGGTGAAGTTGGCTGAATGTGGGCTTTCGTATGCCGTAGTTTCTATAATGGGTCCACAAAGTAGTGgtatgctctctgttctccttaaccttattgttttccttcccttctcaagctaattggattttataatttctttaacctgtctgtgcacctgaggatcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttccc