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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatatcaaattgttgtttcctcttggttggaatactattttcttcaaatggattcccatttagattgcttttctctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAAATCAACATTTGCTGCTACTCCATCTCATAGA

Basic information

species Glycine max
transcript GLYMA17G35410.1
intron # 10
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|17963168|gb|BM269920.1|BM269920
EST:     GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGA                         GTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
genomic: GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGAgtaagatatc ... tctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
EST: gi|19270973|gb|BM887229.1|BM887229
EST:     GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGA                         GTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
genomic: GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGAgtaagatatc ... tctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
EST: gi|208120003|gb|GD918384.1|GD918384
EST:     GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGA                         GTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACAT
genomic: GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGAgtaagatatc ... tctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACAT
EST: gi|208047346|gb|GD847355.1|GD847355
EST:     GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGA                         GTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
genomic: GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGAgtaagatatc ... tctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
EST: gi|6454744|gb|AW185427.1|AW185427
EST:     GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGA                         GTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA
genomic: GCAGATTCAAATATTTGTCGATATTCAAATGCCATACCTGAGCCTGCCGAgtaagatatc ... tctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaatactattttcttcaaatggattcccatttagattgcttttctctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAAATCAACATTTGCTGCTACTCCATCTCATAGA
                                            ctctgat  putative branch site (score: 4)
                                    ttgcttttctct  CT-rich tract
       tattttcttcaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagatatcaaattgttgtttcctcttggttggaatactattttcttcaaatggattcccatttagattgcttttctctgatgcagGTGGCCCTCAAAATTAGACATGACAAAACGAACAGATCTTCGACATGTGAAATCAACATTTGCTGCTACTCCATCTCATAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT