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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cactctaaaaactgacatccataatccataaatgatacatcaataattgctacgtgatatgagtcatactaataatgtgtagtaataattgtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAGGTGTGGTCGACCCTGCCAAGCTTGTTGATCATGTATATAAGAGGACCAA

Basic information

species Glycine max
transcript GLYMA17G01010.1
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|193485865|gb|FK451226.1|FK451226
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAA-G
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193493160|gb|FK460022.1|FK460022
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193633839|gb|FK582011.1|FK582011
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|208303156|gb|GE101425.1|GE101425
EST:     TTGTGAAGCATGTGCTCAAGTTATGCAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|208024258|gb|GD824266.1|GD824266
EST:     CAGAAGCGAATCCGCAAGATTAAAG                         GAGTTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAA
genomic: CAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAG-TAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAA
EST: gi|193417715|gb|FK384247.1|FK384247
EST:     TGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|208233615|gb|GE028570.1|GE028570
EST:     TTGCGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193592506|gb|FK545668.1|FK545668
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|207720462|gb|GD702233.1|GD702233
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193732801|gb|FK668130.1|FK668130
EST:     GTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAA-G
genomic: GTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193514103|gb|FK466541.1|FK466541
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|207787526|gb|GD759322.1|GD759322
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|298171211|gb|HO016243.1|HO016243
EST:     TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TTGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
EST: gi|193401044|gb|FK370099.1|FK370099
EST:     TGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAG                         GAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG
genomic: TGTGAAGCATGTGCTCAAGTTATACAGAAGCGAATCCGCAAGATTAAAGgtacaaatat ... gtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgctacgtgatatgagtcatactaataatgtgtagtaataattgtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAGGTGTGGTCGACCCTGCCAAGCTTGTTGATCATGTATATAAGAGGACCAA
                     tactaat  putative branch site (score: 1)
                        taataatgtgtagtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cactctaaaaactgacatccataatccataaatgatacatcaataattgctacgtgatatgagtcatactaataatgtgtagtaataattgtatgtgcagGAGTAGAATCAGTGGAAACAGACTTGGCAAATGATCAAGTTATAGTAAAAGGTGTGGTCGACCCTGCCAAGCTTGTTGATCATGTATATAAGAGGACCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA