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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctctctgcttttacttcctttctgttactgttcttcttgatagttgatacctatcagtaactgcttgcttcatacatccttactaaactttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGATTATTCTCAAAAGAG

Basic information

species Glycine max
transcript GLYMA03G24630.1
intron # 11
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|8284122|gb|BE021681.1|BE021681
EST:     AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTG                         GTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
genomic: AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTGgttcgtgaaa ... ttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
EST: gi|58018827|gb|CX705569.1|CX705569
EST:     GCCAAGGACTGAGGGAAGGAGCAAGCTTCGTGGAAGTG                         TTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTGGGAGGA
genomic: GCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTGgttcgtgaaa ... ttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
EST: gi|58015662|gb|CX702404.1|CX702404
EST:     AGAAATGGATCGCCAAGGACTGA-GGAAGGGAGCAAGCCTCGTGGAAGTG                         GTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
genomic: AGAAATGGATCGCCAAGGACTGAGGGAA-GGAGCAAGCCTCGTGGAAGTGgttcgtgaaa ... ttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
EST: gi|9264573|gb|BE352720.1|BE352720
EST:     AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTG                         GTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
genomic: AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTGgttcgtgaaa ... ttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
EST: gi|207738333|gb|GD716993.1|GD716993
EST:     AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTG                         GTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA
genomic: AAGAAATGGATCGCCAAGGACTGAGGGAAGGAGCAAGCCTCGTGGAAGTGgttcgtgaaa ... ttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatacctatcagtaactgcttgcttcatacatccttactaaactttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGATTATTCTCAAAAGAG
                                    tactaaa  putative branch site (score: 1)
                                   ttactaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctctctgcttttacttcctttctgttactgttcttcttgatagttgatacctatcagtaactgcttgcttcatacatccttactaaactttggtaacagGTCAAGCAAGTGAAGCCTGACGTTCTCCTAGGATTATCGGCTGTTGGAGGATTATTCTCAAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
cctctct
- - - - - - - cttcctt
- - - - - - - - - - - - gttactg
- - - - - - - - - - - - - - - - -cttcttg
- - - - - - - - - - - - - - - - - - - - - - -tgatacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaactg