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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACAACAAAGTTCCTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagatcatatgcctattacaccttgttatctaatattgtttcttaagtcaatctgtcttaaactattacatatagctgataacttaaagtgcttcttttggttttag

Basic information

species Glycine max
transcript GLYMA06G18730.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G18730.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G50180.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACAACAAAGTTCCTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagatcatatgcctattacaccttgttatctaatattgttt--cttaagtcaatctgtcttaaactattacatatagctgataacttaaagtgcttcttttggttttag
 || ||||| |||||||| ||  | |||||||| |||||||| ||| | |||||||| || |||||||| || || ||||||||||| |||||||| || ||          ||   || |      ||| | |  | | | | |   ||| | ||  | ||| || |  | || | |||| | |                             
CGCCTATAGCTTTGCAATAGTTCTTTGGGAGCTTTTACACAATAAATTGCCTTTTGAGGGAATGTCAAATCTCCAAGCAGCATATGCAGCAGCCTTCAAAgtg-------tgtaacactgtcttgttttgcttttgattttcgctgaactttattctctttgttttgacatgtttcttata-cag-----------------------------
















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|18720447|gb|BM523256.1|BM523256
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|193607926|gb|FK557007.1|FK557007
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|207764027|gb|GD738878.1|GD738878
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGA
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGA
EST: gi|6566830|gb|AW234462.1|AW234462
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|6725443|gb|AW309842.1|AW309842
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|19936237|gb|BQ080780.1|BQ080780
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|31471429|gb|CD413457.1|CD413457
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|193703300|gb|FK640054.1|FK640054
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|22522500|gb|BU081311.1|BU081311
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|7638929|gb|AW733194.1|AW733194
EST:     CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
EST: gi|192311809|gb|FK003614.1|FK003614
EST:     CTTTTGAAGGCATGTCAAGCCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATC
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATC
EST: gi|192312935|gb|FK003615.1|FK003615
EST:     CTTTTGAAGGCATGTCAAGCCTTCAGGCAGCATATGCTGCAGCCTTTAAG                         AATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT
genomic: CTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagat ... ttggttttagAATGTAAGGCCAAGTGCAGAAAATCTTCCTGAGGAGTTGGCTGTAATTCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTTATAGTTTTGCAATTGTGTTGTGGGAGCTCTTACACAACAAAGTTCCTTTTGAAGGCATGTCAAACCTTCAGGCAGCATATGCTGCAGCCTTTAAGgtaaaaagatcatatgcctattacaccttgttatctaatattgtttcttaagtcaatctgtcttaaactattacatatagctgataacttaaagtgcttcttttggttttag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG