Sequence
atgc intronic sequence ATGC exonic sequenceCCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
Basic information
species | Glycine max |
transcript | GLYMA06G43050.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 5
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
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TCCAAGAGTGACACCAGAAGTCACAAGGGATGTATGCTTGCTTGCTAGAATGATGGCTTCAAATTTATACTGCTCGCAAATTGAGGATCTCATGTTTGAGgtaagaattacttcatcccttatcttccacacatataaatcaatttt---attaaattctccaaattctggcag------------------
upper sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 5
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
|| || || || ||||| |||||||||||||| || ||||| || ||||||||||| || || ||||| | ||| || |||||||||||||||||||||||| | | || ||| | | | ||||| | |||| | | || || | | | | || || || |
TCCAAGAGTCACACCAGAGGTTACAAGGGATGTCTGCTTGCTTGCAAGAATGATGGCAGCAAACTTGTATTGCTCACAAATTGAGGATCTCATGTTTGAGgtacaatttgatttgactattttaaagtacagtaattattat-gcat-atgattgttggat--attgataaagctttaaatgatttcag---
upper sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 7
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaa--atatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
|| || || || ||||| ||||||||||| || || || | |||||||||||||||||||| || |||| | ||||| |||||||| |||||||||||| || ||| | || | | | | || ||| | | | | | || || | | | ||
TCCAAGAGTCACACCAGAGGTTACAAGGGACGTATGCCTGTTAGCTAGAATGATGGCTGCTAACTTATACTATGCACAGATAGAGGATCTGATGTTTGAGgtaaaaataataggttgtactatttaaaggatatatgctgtattgatgtttgatct--cacacaaaattttgaccacctgcag-----------
upper sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 4
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
|| || || || ||||| ||||| |||||||| || ||||| || ||||||||||| | || ||||||| |||||||||||||||||||||||||||||| || | || | | || | | || || || || | ||| | | | | || | | ||||| |
TCCAAGAGTGACACCAGAGGTTACCAGGGATGTCTGCTTGCTTGCCAGAATGATGGCATCAAACTTGTACTGCTCTCAGATTGAGGATCTCATGTTTGAGgtgtctattactttaataatcaga----atatagttcataacatcatttatatcagaggattggagttgatagattgaaatgcttgcag---
upper sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 5
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
|| || || || ||||| |||||||||||||| || ||| |||||||||||||||||||||||||||| | ||||| || || || |||||||||||| || || | || | ||| | || ||| ||| | | |||| | | |||
TCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTTTGAGgtaa-aagtaaggacacatttttttaatattgtagtgatattagtctcacaagaattctttttatcgcatgcag------------------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|26045705|gb|CA783206.1|CA783206EST: TGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAG TTGTCTATGTGGCGCTGCAATGATGAACTACGTGTT
genomic: TGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaata ... cttctggcagTTGTCTATGTGGCGCTGCAATGATGAGCTACGTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCCAGGGTAACTCCAGAAGTTACAAGGGATGTGTGTTTGCTGGCTAGAATGATGGCTGCTAATTTGTACTTCTCTCAGATTGAGGATCTCATGTTTGAGgtatcaaatatgctggtcattacagatcatttattttattctagcatcaaggttactgttttaacttcttgcttcttgtttgcttctggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT