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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttagggccttcgggtcatgaacttacttttattatgtgtgccatttgcttcttgatccaattcttctgatctttatactcttgctttgctcttctagTTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGGCATCAAGCAAATTGTACCAGATCAAGAGCTTCCTTTCCTCAAGATAAAA

Basic information

species Glycine max
transcript GLYMA10G35620.1
intron # 4
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|193681529|gb|FK623307.1|FK623307
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTT
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTT
EST: gi|207804260|gb|GD775851.1|GD775851
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTT
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTT
EST: gi|193641383|gb|FK588107.1|FK588107
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGG
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGG
EST: gi|208233970|gb|GE028645.1|GE028645
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGG
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGG
EST: gi|208247328|gb|GE047516.1|GE047516
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTT
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTT
EST: gi|193398901|gb|FK362583.1|FK362583
EST:     TCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTTACCT                         TTATATGCCATTCTCTGGATTT
genomic: TCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTT-ACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTT
EST: gi|193634044|gb|FK581558.1|FK581558
EST:     TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCT                         TTATATGCCATTCTCTGGATTT
genomic: TTCATCACTGCTATTGCTTTGTACTGCATTACAGGGCAGGAGAGTTACCTgtgagtattt ... gctcttctagTTATATGCCATTCTCTGGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgcttcttgatccaattcttctgatctttatactcttgctttgctcttctagTTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGGCATCAAGCAAATTGTACCAGATCAAGAGCTTCCTTTCCTCAAGATAAAA
                     ttctgat  putative branch site (score: 3)
                                   ctcttgctttgctctt  putative PPT
                          atctttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttagggccttcgggtcatgaacttacttttattatgtgtgccatttgcttcttgatccaattcttctgatctttatactcttgctttgctcttctagTTATATGCCATTCTCTGGATTTCATGGAGTTATATTTGGCTTCTTGGTTGGCATCAAGCAAATTGTACCAGATCAAGAGCTTCCTTTCCTCAAGATAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - catgaac
- - - - - - - - - - - - - - - - - - -tgtgtgc
- - - - - - - - - - - - - - - - - - - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttgc