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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcacttaatctgaattgtttgaaattgaaaaatattacccatacatagtctgctgtttggatctaaatttggaaatgtgctattcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAACATATTGCGTTGGCTGTGAATGAAGAGCTGAATCTACATACCAGACTCAT

Basic information

species Glycine max
transcript GLYMA18G10060.2
intron # 3
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|120496955|gb|EH225122.1|EH225122
EST:     TGGCCTGTACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|298187958|gb|HO031915.1|HO031915
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTA
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTA
EST: gi|192328423|gb|FK020711.1|FK020711
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAG-AGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|298169593|gb|HO020953.1|HO020953
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGC
EST: gi|151404720|gb|EV274534.1|EV274534
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAAGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|120496797|gb|EH224964.1|EH224964
EST:     TGGCCTGTACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|192328424|gb|FK020712.1|FK020712
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|298173914|gb|HO017250.1|HO017250
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|15337095|gb|BI497751.1|BI497751
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGG
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGG
EST: gi|298192925|gb|HO033359.1|HO033359
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|254334673|gb|GR844458.1|GR844458
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|192309834|gb|FK002946.1|FK002946
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|192309833|gb|FK002945.1|FK002945
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAAC
EST: gi|20449153|gb|BQ253277.1|BQ253277
EST:     TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAG                         AGCAAGACGATGGCCTTGAGAAATTGGAG
genomic: TGGCCTGGACAACAGTGGACTAGTTGGTCTTCAACGGCAAATTATGAAAGgtcacttaat ... attcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acccatacatagtctgctgtttggatctaaatttggaaatgtgctattcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAACATATTGCGTTGGCTGTGAATGAAGAGCTGAATCTACATACCAGACTCAT
                        atctaaa  putative branch site (score: 3)
 atctaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcacttaatctgaattgtttgaaattgaaaaatattacccatacatagtctgctgtttggatctaaatttggaaatgtgctattcaagcagAGCAAGACGATGGCCTTGAGAAATTGGAGGAGACTGTAATCAGTACTAAACATATTGCGTTGGCTGTGAATGAAGAGCTGAATCTACATACCAGACTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA