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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcacataaccgagtagctacaaaagtactttatctttttatcgttgacagtctagcaaccctttcattgatttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG

Basic information

species Glycine max
transcript GLYMA11G11960.1
intron # 11
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|214005069|gb|DB985679.1|DB985679
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|17153400|gb|BM143333.1|BM143333
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|209722770|gb|BW682868.1|BW682868
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|7478069|gb|AW666124.1|AW666124
EST:     TGGAAGCTATACAGAAAACTTGCAGAGAAGTCTG-TCTCTTGAGTGAAAG                         GAGATCTTACATTGTGAAGGATGACAGTGGATATGGCTCAACCATGAT
genomic: TGGAAGCTATACAGAAAACTTGCAGAGAA-TCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATGAT
EST: gi|209714967|gb|BW650813.1|BW650813
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|9899890|gb|BE608858.1|BE608858
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|22930235|gb|BU547374.1|BU547374
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|58014892|gb|CX701634.1|CX701634
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|209726038|gb|BW672761.1|BW672761
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
EST: gi|9899883|gb|BE608851.1|BE608851
EST:     CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAG                         GAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
genomic: CTGGAAGCTATACAGAAAACTTGCAGAGAATCTGGTCTCTTGAGTAAAAGgtatgcacat ... atttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactttatctttttatcgttgacagtctagcaaccctttcattgatttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG
                                        cattgat  putative branch site (score: 4)
                                     tttcattgatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcacataaccgagtagctacaaaagtactttatctttttatcgttgacagtctagcaaccctttcattgatttaagcagGAAATCTTACATTGTGAAGGATGAAAGTGGATATGGCTCAACCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA