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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctgtcccataccttatatatcttcaaatacctacctttcattcttgctttttgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGTTGGAGC

Basic information

species Glycine max
transcript GLYMA20G39090.1
intron # 1
splice site 3'
intron type U2

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|213596990|gb|DB966327.1|DB966327
EST:     GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGA                         ATTTCTGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
genomic: GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGAgtgagtctgt ... tgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
EST: gi|4306534|gb|AI443918.1|AI443918
EST:     GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGA                         ATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
genomic: GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGAgtgagtctgt ... tgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
EST: gi|6069747|gb|AW099367.1|AW099367
EST:     GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGA                         ATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
genomic: GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGAgtgagtctgt ... tgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
EST: gi|213601363|gb|DB956683.1|DB956683
EST:     GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGA                         ATTTCTGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
genomic: GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGAgtgagtctgt ... tgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
EST: gi|5666728|gb|AI930764.1|AI930764
EST:     GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGA                         ATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT
genomic: GTAGCCTTCTCCCAACCAGTTGCCGACCTACTTGATCTCGACCATAAAGAgtgagtctgt ... tgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataccttatatatcttcaaatacctacctttcattcttgctttttgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGTTGGAGC
                                          ttttgac  putative branch site (score: 3)
                       cctacctttcattctt  CT-rich tract
      ttatatatcttcaaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtctgtcccataccttatatatcttcaaatacctacctttcattcttgctttttgactttcagATTTCAGAGGCCAGATTTTCCCCTTTTCTTCTCTGGTGCCACACCTTTAGTTGGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG