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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttgttgttcttgtttttgttattgctgtttactgtctaatgcctatggagttgcgagtctctctgacttttattgttccccttgtttatcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTCATTGCTATGATTGCAGATGAG

Basic information

species Glycine max
transcript GLYMA08G09570.1
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|209720495|gb|BW674678.1|BW674678
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|254338552|gb|GR845695.1|GR845695
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|9984254|gb|BE658362.1|BE658362
EST:     NGAAATC-NCNNGTNGTCTCCGCCATCNCCGCTGCCAGCCTTTCGANNTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: TGAAATCTTC-CGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|21887354|gb|BQ740567.1|BQ740567
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|58016543|gb|CX703285.1|CX703285
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|298198565|gb|HO040104.1|HO040104
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|6952212|gb|AW424280.1|AW424280
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|192294996|gb|FG986715.1|FG986715
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|213604582|gb|DB966669.1|DB966669
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|8284082|gb|BE021641.1|BE021641
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|298165832|gb|HO008803.1|HO008803
EST:     CTGAAGTCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACGGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|13311850|gb|BG405501.1|BG405501
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|298182781|gb|HO031516.1|HO031516
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|15813300|gb|BI785575.1|BI785575
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|6724545|gb|AW308944.1|AW308944
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|193688464|gb|FK634455.1|FK634455
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|208301245|gb|GE097398.1|GE097398
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCA
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCA
EST: gi|13252581|gb|BG363484.1|BG363484
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|193500288|gb|FK465317.1|FK465317
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|254338553|gb|GR845696.1|GR845696
EST:     GCTGCCAGCCTTTCGATCTG                         TCATACAAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: GCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|213594238|gb|DB966139.1|DB966139
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
EST: gi|208128800|gb|GD927106.1|GD927106
EST:     CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTG                         TCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC
genomic: CTGAAATCTTCCGTCGTCTCCGCCATCTCCGCTGCCAGCCTTTCGATCTGgtgcgttcgt ... tcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggagttgcgagtctctctgacttttattgttccccttgtttatcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTCATTGCTATGATTGCAGATGAG
                 ctctgac  putative branch site (score: 3)
                                ttccccttgtttatca  putative PPT
                        ttttattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttgttgttcttgtttttgttattgctgtttactgtctaatgcctatggagttgcgagtctctctgacttttattgttccccttgtttatcatctccagTCATACCAAATGGCCAACAGAGTTCAAATTCCTACCAACAATTCAGCCCTCATTGCTATGATTGCAGATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- -tgttgtt
- - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - -tactgtc
- - - - - - - - - - - - - - - - - - - -aatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctg