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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatcactcagcatcactagtgtcaattttttgtattgttttgttgttcacactcgatgcatttaatatattctaaatttctcttcttgttgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGTTGTAATACTTGCAAGAAAAGGAAAGTAGAGTTCCATTTGGTCTCCTATG

Basic information

species Glycine max
transcript GLYMA20G36510.1
intron # 3
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|207751513|gb|GD722526.1|GD722526
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTA
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTA
EST: gi|37993912|gb|CF805658.1|CF805658
EST:     TCGGAAGTACTACTACTACTAAGCCGGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|10253235|gb|BE821001.1|BE821001
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|208024429|gb|GD826019.1|GD826019
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGT
EST: gi|6094736|gb|AW119400.1|AW119400
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|13482357|gb|BG511700.1|BG511700
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|193676064|gb|FK617838.1|FK617838
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGT
EST: gi|5126623|gb|AI748359.1|AI748359
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|6094728|gb|AW119392.1|AW119392
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|192333104|gb|FK026433.1|FK026433
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|207826574|gb|GD798677.1|GD798677
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAA
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAA
EST: gi|15000834|gb|BI321648.1|BI321648
EST:     TTGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCATAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAA
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAA
EST: gi|16342748|gb|BI968343.1|BI968343
EST:     CCAGCAGGCGTAAAG                         TCCTTCCTGGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAG
genomic: CCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCT-GGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAG
EST: gi|5126631|gb|AI748367.1|AI748367
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGT
EST: gi|193534023|gb|FK488632.1|FK488632
EST:     TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAG                         TCCTTCCTGGGTACAAAAGTATGAAGT
genomic: TCGGAAGTACTACTACTACTAAGCCAGGAAACTCTCCAGCAGGCGTAAAGgtatggagat ... tgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcacactcgatgcatttaatatattctaaatttctcttcttgttgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGTTGTAATACTTGCAAGAAAAGGAAAGTAGAGTTCCATTTGGTCTCCTATG
                         ttctaaa  putative branch site (score: 2)
                                tttctcttcttgttgc  CT-rich tract
               atttaatatattctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acatcactcagcatcactagtgtcaattttttgtattgttttgttgttcacactcgatgcatttaatatattctaaatttctcttcttgttgcctttcagTCCTTCCTGGGTACAAAAGTATGAAGTTAAGTTTAAGCTTGGTCTTGAAGTTGTAATACTTGCAAGAAAAGGAAAGTAGAGTTCCATTTGGTCTCCTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- -tcactca
- - - - - - - - - - - - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - cacactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcattt