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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGCAAAGCTTTTTCATTCGCTCATCCAGTTCAATAATATATTAATCGATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttcttatatggtaaaattaaccagagtatggtgctatactttaagagcagcaataatcttttcatttacaaaactttttatgcag

Basic information

species Glycine max
transcript GLYMA14G06780.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G06780.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv13s0019g03330.t01 (Vitis vinifera), 5'ss of exon 6
CATGGCAAAGCTTTTTCATTCGCTCATCCAGTTCAATAATATATTAATCGATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttcttatatggtaaaattaaccagagtatggtgctatactttaagagcagcaataatcttttcatttacaaaactttttatgcag
||||||||||||||| |||    | ||||||||||| || ||||| || ||||||||||||||  | ||| ||||||| ||| | ||||||||||||||||| ||   ||||| |||  | || ||     | |  | |  | |  | ||  |  |      ||| ||| |  | |||||  | ||  ||||
CATGGCAAAGCTTTTCCATGGAATTATCCAGTTCAACAACATATTGATTGATTTTGATAGAGACATATGGAGCTATATTTCTGTAGGTTACTTTAAGCAGgtaaggaatcttacatga-ataaatatttttattgggtttgtctcatatacaaataatgtggatcatttaacattcaaaa--tcttgagcag
















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|208303520|gb|GE101265.1|GE101265
EST:     CTTTGGGTTACTTTAAGCAG                         ACCACCAAGGCTGGAGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
genomic: CTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
EST: gi|151409195|gb|EV279003.1|EV279003
EST:     ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAG                         ACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
genomic: ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
EST: gi|21285329|gb|BQ473200.1|BQ473200
EST:     ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAG                         ACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
genomic: ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
EST: gi|51335938|gb|CO979804.1|CO979804
EST:     ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAG                         ACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
genomic: ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
EST: gi|16277667|gb|BI942500.1|BI942500
EST:     ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAG                         ACCACTAATGCTGGGGAGATTGTGTCATCAACTATGCCTCACAAAGTGAAT
genomic: ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT
EST: gi|16276249|gb|BI941758.1|BI941758
EST:     ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAG                         ACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACANAGTGAAT
genomic: ATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttc ... ttttatgcagACCACTAAGGCTGGGGAGATTGGGTCATCAACTATGCCTCACAAAGTGAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGCAAAGCTTTTTCATTCGCTCATCCAGTTCAATAATATATTAATCGATTTTGATAGAGATGTGTGGGGCTATATATCTTTGGGTTACTTTAAGCAGgtgagctttcttatatggtaaaattaaccagagtatggtgctatactttaagagcagcaataatcttttcatttacaaaactttttatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG