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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcatatttatgctttatcctatttgctatctcttgatcttgagagtttgagtttttcatgtagctagtttttttttggaagcaatttgacccctgatgtttttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTGGATG

Basic information

species Glycine max
transcript GLYMA02G40310.1
intron # 4
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|193312586|gb|FK275222.1|FK275222
EST:     AGGGGGTTGAGACTGCATTTGCTGGTTTG-AAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATTAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|151412916|gb|EV282728.1|EV282728
EST:     AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|208281966|gb|GE080176.1|GE080176
EST:     AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|208244387|gb|GE042572.1|GE042572
EST:     CTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: CTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|38193867|gb|CF923073.1|CF923073
EST:     AAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|58022083|gb|CX708824.1|CX708824
EST:     TGAGACTGCATTTGCTGG-TTGAAAAAAGAAGAAGAAGAAGCCT                         G-TGAAAATGAGTAAC-TGAAATGATGAGAGTGGAGATGCAAATGAGGATT
genomic: TGAGACTGCATTTGCTGGTTTG-AAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTG-AAATGAGTAACTTG-AATGATGAGAGTGGAGATGCAAATGAAGATT
EST: gi|208057088|gb|GD854179.1|GD854179
EST:     AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|208314970|gb|GE112262.1|GE112262
EST:     CTGCATTTGCTTGGTTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: CTGCATTTGC-TGG-TTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|58020605|gb|CX707347.1|CX707347
EST:     AGGGGGTTGAGACTGCATTTGCTGG-TTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|254337820|gb|GR849559.1|GR849559
EST:     GAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: GAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
EST: gi|16347705|gb|BI973300.1|BI973300
EST:     AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCT                         GTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG
genomic: AGGGGGTTGAGACTGCATTTGCTGGTTTGAAAAAGAAGAAGAAGAAGCCTgtaagtcata ... ttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgtagctagtttttttttggaagcaatttgacccctgatgtttttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTGGATG
                                           ttttgat  putative branch site (score: 4)
                                        tgttttt  CT-rich tract
        tagttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcatatttatgctttatcctatttgctatctcttgatcttgagagtttgagtttttcatgtagctagtttttttttggaagcaatttgacccctgatgtttttgattgtagGTTGAAATGAGTAACTTGAATGATGAGAGTGGAGATGCAAATGAAGATTTGGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA