Sequence
atgc intronic sequence ATGC exonic sequenceCAGAATGATGGAAGATCATGAGACTACTCATCAGTTGAACAAAAAGCCAACCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatag
Basic information
species | Glycine max |
transcript | GLYMA20G01680.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os06g14750.1 (Oryza sativa), 5'ss of exon 4
CAGAATGATGGAAGATCATGAGACTACTCATCAGT-----TGAACAAAAAGCCAACCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattcctttttctttttattttc--ttccatgttttt-----ttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatag----------------------
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-----TGAACGAGTTTCAGAGTCTTCATCACCAAAGAATGCAAACAAGAAGTCTGCCAAGACACTGATGTTTTTTGATGGTTGTCCAAGACGGTTGGGCTGCACGgtaagcatcatactgttcgttgttgactcaatgatcatcaaagttacatattgattacc-tattgtaaattgccatgatcatgtaaggcttcatgctttgttttgtgacttacataatcaaaccaccttgtttttttactag
upper sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 4
CAGAATGATGGAAGATCATGAGACTACTCATCAGTTGAACAAAAAGCCAACCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatgga---tatggatgtgcaatggtgcctgtttctgattttgattctcattatag
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GAGAGTGTCAGAAGAACTTGAGACTGCTAATCAATCCAACAAGAAACCATCTAAAACTTTGATGTTTTTTGAGGGTTGTCCAAGGCGTTTAGGTTGCACGgtattgttttct----ttatctcaattta---ttgtttaaaattctcattgcatttgaaatttggaaggtatgagaacaaaataaga--tatttgtcattgtg-ctctca------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|193311036|gb|FK274162.1|FK274162EST: CCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACG GTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATG
genomic: CCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattccttt ... ctcattatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGAATGATGGAAGATCATGAGACTACTCATCAGTTGAACAAAAAGCCAACCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG