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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtctggttcttccttaaaacagcaacttgcatgttggaactgttgtttctggttatattttatgcgtttctgactaattcattcatgtggagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCTTGAGAGGGAACCTTACTGGCCCTCTGAAAAGCTCAGAATTTCCATCACT

Basic information

species Glycine max
transcript GLYMA19G43410.1
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|7693087|gb|AW761185.1|AW761185
EST:     CC-TTCATTCTTCTCCTAAATCCTAATCCTTCTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: CCATTC-TTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|213617024|gb|DB959336.1|DB959336
EST:     TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|7030357|gb|AW460140.1|AW460140
EST:     CC-TTCATTCTTCTCCTAAATCCTAATCCTTCTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: CCATTC-TTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|13125304|gb|BG315874.1|BG315874
EST:     CC-TTCATTCTTCTCCTAAATCCTAATCCTTCTTCACTTTCAGTT-TCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: CCATTC-TTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|209713688|gb|BW681841.1|BW681841
EST:     TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|213616518|gb|DB965716.1|DB965716
EST:     TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: TCCATTCTTCTTCTCCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
EST: gi|15287506|gb|BI471397.1|BI471397
EST:     CCTAAATCCTAATCCTTCTTCACTTTCAGTTCTCAG                         CATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT
genomic: CCTAAATCCTAATCCTTTTTCACTTTCAGTTCTCAGgtatctcctc ... gagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctggttatattttatgcgtttctgactaattcattcatgtggagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCTTGAGAGGGAACCTTACTGGCCCTCTGAAAAGCTCAGAATTTCCATCACT
                           gactaat  putative branch site (score: 2)
     tggttatattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtctggttcttccttaaaacagcaacttgcatgttggaactgttgtttctggttatattttatgcgtttctgactaattcattcatgtggagtgtgcagCATGGGAAGTTCTGGAACAACCGACTATGGAGCATACACATACCAAAACCTTGAGAGGGAACCTTACTGGCCCTCTGAAAAGCTCAGAATTTCCATCACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - -ttcttcc
- - - - - - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattcat