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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttacaccgaagcggttaatcttgagctactttcatacgaaacgttatcagtttttgctccgttttattgactctcgttgcgtgtttgaaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGAGTTGGTGCTTACCGAACTGAG

Basic information

species Glycine max
transcript GLYMA06G08670.2
intron # 1
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|213618075|gb|DB963708.1|DB963708
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|27808994|gb|CB063416.1|CB063416
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|37997401|gb|CF808990.1|CF808990
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|151408997|gb|EV278805.1|EV278805
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|213587077|gb|DB961772.1|DB961772
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|4397049|gb|AI496046.1|AI496046
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTNGGG
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTT-GGG
EST: gi|151394218|gb|EV264089.1|EV264089
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|6454608|gb|AW185291.1|AW185291
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|9986765|gb|BE660873.1|BE660873
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|151395018|gb|EV264889.1|EV264889
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|298184704|gb|HO029917.1|HO029917
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|213588877|gb|DB967957.1|DB967957
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|193304881|gb|FK271750.1|FK271750
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTAATAAACAAAG
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTA-TAA-CAAAG
EST: gi|192307206|gb|FK001220.1|FK001220
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|298196933|gb|HO041676.1|HO041676
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|209723439|gb|BW682393.1|BW682393
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|24205360|gb|BU964613.1|BU964613
EST:     CTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: CTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|298196196|gb|HO044587.1|HO044587
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|7925748|gb|AW831774.1|AW831774
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|209696907|gb|BW660472.1|BW660472
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|298174108|gb|HO017444.1|HO017444
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|209719273|gb|BW679815.1|BW679815
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|151411675|gb|EV281486.1|EV281486
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACAGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|209714938|gb|BW650784.1|BW650784
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
EST: gi|193395947|gb|FK364922.1|FK364922
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAG
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAG
EST: gi|18690845|gb|BM519693.1|BM519693
EST:     ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGG                         GTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA
genomic: ATTCCGTCTTCAATCACCTCGTTCGTGCTCCCGAAGATCCTATCCTCGGGgtactatttt ... aaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatcagtttttgctccgttttattgactctcgttgcgtgtttgaaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGAGTTGGTGCTTACCGAACTGAG
                      tattgac  putative branch site (score: 2)
                                       tgtttgaaaaaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttacaccgaagcggttaatcttgagctactttcatacgaaacgttatcagtttttgctccgttttattgactctcgttgcgtgtttgaaaaaaatagGTAACTGTCGCTTATAACAAAGATCCAAGTCCAGTTAAGCTCAACTTGGGAGTTGGTGCTTACCGAACTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - -gctactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcgtgt