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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgttttttggttcatgatgcctattgcatgtattagaagatgaatgaccatagtgaactaacaatgcttgctacctttctaatggtgctgtatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG

Basic information

species Glycine max
transcript GLYMA06G14050.2
intron # 6
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|254343884|gb|GR857640.1|GR857640
EST:     TA-C-TC-AAAACTGCCATTGCACCAGTCAATCC-ACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|6481922|gb|AW201193.1|AW201193
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|21888556|gb|BQ741769.1|BQ741769
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|192319171|gb|FK009111.1|FK009111
EST:     TACCTTCAAAAACTGCCATCGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|193559320|gb|FK513783.1|FK513783
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACTAAATAT
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCAC-AAATAT
EST: gi|9205289|gb|BE331513.1|BE331513
EST:     TCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|192319172|gb|FK009112.1|FK009112
EST:     TACCTTCAAAAACTGCCATCGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|254324021|gb|GR840446.1|GR840446
EST:     CCCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATAT
genomic: -CCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTG-CCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATAT
EST: gi|6481926|gb|AW201197.1|AW201197
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|151397590|gb|EV267463.1|EV267463
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|21677144|gb|BQ629495.1|BQ629495
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|8403307|gb|BE058941.1|BE058941
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|15661924|gb|BI699295.1|BI699295
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
EST: gi|254343883|gb|GR857639.1|GR857639
EST:     TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGG                         TCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC
genomic: TACCTTCAAAAACTGCCATTGCACCAGTCAATCCAACATTTTTGCCCAGGgtagtgtttt ... tatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaccatagtgaactaacaatgcttgctacctttctaatggtgctgtatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG
                                             tatttctc  CT-rich tract
                              tttctaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtgttttttggttcatgatgcctattgcatgtattagaagatgaatgaccatagtgaactaacaatgcttgctacctttctaatggtgctgtatttctcagTCTGAAGATGAAAGGGAGATGTGCTCAAGAACAATTTATTGCACAAATATCGACAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG