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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attcacatctgctatatgtctatgaaaactatgaatttccttgaaaatctgcttttgatgtaaaaagctactaatactatccatcaatttctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTCATGGCTCCACAATCACAGTCCTTAGATGCTGTGTGATGGATAAATGCTT

Basic information

species Glycine max
transcript GLYMA20G28420.2
intron # 7
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|120496152|gb|EH224319.1|EH224319
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|58021912|gb|CX708653.1|CX708653
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|16278546|gb|BI942961.1|BI942961
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|207814614|gb|GD788523.1|GD788523
EST:     CGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|120528942|gb|EH257076.1|EH257076
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|16278135|gb|BI942744.1|BI942744
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTNTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|16105448|gb|BI893188.1|BI893188
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
EST: gi|209713507|gb|BW679284.1|BW679284
EST:     CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAG                         TTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC
genomic: CTTCGACAAGCAACAGAGTATGATCCACGTCGCCGTGGAACTATACCAAGgtatggtatc ... ctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctgcttttgatgtaaaaagctactaatactatccatcaatttctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTCATGGCTCCACAATCACAGTCCTTAGATGCTGTGTGATGGATAAATGCTT
                       tactaat  putative branch site (score: 1)
                                          tttctat  putative PPT
       ttttgatgtaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attcacatctgctatatgtctatgaaaactatgaatttccttgaaaatctgcttttgatgtaaaaagctactaatactatccatcaatttctatgtgcagTTCGAAAGGGGTTCTGTCCCGTAGCTAATATTTTTCTGGCGGTGGACCTTCATGGCTCCACAATCACAGTCCTTAGATGCTGTGTGATGGATAAATGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA