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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atctaggatatctttattgcagttaatttgccttttcatttcttgatttttaaatttgggtttgattaataaatacttaaaatggttgttgataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAGAAAGTCTACACCAACTATCAGCAGCACAGGCTTTGGATGCATAAGTGGT

Basic information

species Glycine max
transcript GLYMA04G39390.1
intron # 9
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|193438216|gb|FK402207.1|FK402207
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193638984|gb|FK585995.1|FK585995
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193691782|gb|FK631509.1|FK631509
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACNGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|208316033|gb|GE111001.1|GE111001
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAA
EST: gi|193678209|gb|FK617073.1|FK617073
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAAGGAAAAAACAGAACAAAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAA-GGAAAAAACAGAACAAAA
EST: gi|193698325|gb|FK641524.1|FK641524
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|17401015|gb|BM177797.1|BM177797
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|31460812|gb|CD402840.1|CD402840
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACTAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|9203484|gb|BE329708.1|BE329708
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTNTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACA
EST: gi|31475139|gb|CD417167.1|CD417167
EST:     TCTTCAAGACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|208246050|gb|GE045664.1|GE045664
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAA
EST: gi|193692202|gb|FK630639.1|FK630639
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAAGGAAAAAACAGAACAAAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAA-GGAAAAAACAGAACAAAA
EST: gi|193715508|gb|FK654593.1|FK654593
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|209726920|gb|BW680262.1|BW680262
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193525100|gb|FK477945.1|FK477945
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAAGGAAAAAACAAGAAACAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAA-GGAAAAAACA-GAA-CAA
EST: gi|208098796|gb|GD891437.1|GD891437
EST:     GGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: GGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193705086|gb|FK641902.1|FK641902
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGACCAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193550230|gb|FK506693.1|FK506693
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|207763084|gb|GD731215.1|GD731215
EST:     TCTTCAATACCTCCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAG
EST: gi|193707972|gb|FK641958.1|FK641958
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAAC
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAAC
EST: gi|151406465|gb|EV276280.1|EV276280
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAA
EST: gi|193709679|gb|FK642573.1|FK642573
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAAGGAAAAAACAGAACAAAA
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAA-GGAAAAAACAGAACAAAA
EST: gi|15000708|gb|BI321522.1|BI321522
EST:     TCTTCTATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193386467|gb|FK350849.1|FK350849
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAA-CAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193580319|gb|FK536435.1|FK536435
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGT
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGT
EST: gi|207714665|gb|GD695962.1|GD695962
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193510995|gb|FK468922.1|FK468922
EST:     CCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: CCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|31472764|gb|CD414792.1|CD414792
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193449005|gb|FK414710.1|FK414710
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGG
EST: gi|213606409|gb|DB974707.1|DB974707
EST:     TCTTCAATACAACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193725117|gb|FK656065.1|FK656065
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAA-CNGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
EST: gi|193309731|gb|FK274957.1|FK274957
EST:     TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATG                         CTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG
genomic: TCTTCAATACCACCCTGAAGCATCCCCTGGACCTCATGATTCTGACTATGgtgagagact ... gataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttttaaatttgggtttgattaataaatacttaaaatggttgttgataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAGAAAGTCTACACCAACTATCAGCAGCACAGGCTTTGGATGCATAAGTGGT
               tttgattaataaatac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atctaggatatctttattgcagttaatttgccttttcatttcttgatttttaaatttgggtttgattaataaatacttaaaatggttgttgataatgcagCTTTTAGGGAGTTTGTAGAGCTAATGAAGCAAGGAAAAAACAGAACAAAAGAAAGTCTACACCAACTATCAGCAGCACAGGCTTTGGATGCATAAGTGGT

- - - - - - - - -tgcagtt
- - - - - - - - - - - - - - tgccttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtt