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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcctttctattctttttgtttttcggcaaataacaaatttttatatgaatctgaatggaaattggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCGGCAGAGTACAGTGGCGTCCAAGTGGAATTGGCCCCTAATTTCGAGATGG

Basic information

species Glycine max
transcript GLYMA12G28670.1
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|192299444|gb|FG990782.1|FG990782
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|24136950|gb|BU927460.1|BU927460
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|298172183|gb|HO021775.1|HO021775
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGTTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|192315107|gb|FK009931.1|FK009931
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|6134030|gb|AW132480.1|AW132480
EST:     AGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: AGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|192333250|gb|FK026131.1|FK026131
EST:     CAGC-AAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|213618494|gb|DB963395.1|DB963395
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|298184141|gb|HO029354.1|HO029354
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|41145772|gb|CK605983.1|CK605983
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|5753507|gb|AI960794.1|AI960794
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|213604365|gb|DB970597.1|DB970597
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTACG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|213587115|gb|DB959536.1|DB959536
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|7233496|gb|AW568841.1|AW568841
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|18690806|gb|BM519654.1|BM519654
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|209709460|gb|BW668376.1|BW668376
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|298191545|gb|HO039024.1|HO039024
EST:     CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: CAGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
EST: gi|6134008|gb|AW132458.1|AW132458
EST:     AGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTG                         ATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG
genomic: AGCAAAACCAAGCCACCCACTAACTTGTTTGGTCCAAGACATGGCTCTGgtgagtttcc ... attggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttttcggcaaataacaaatttttatatgaatctgaatggaaattggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCGGCAGAGTACAGTGGCGTCCAAGTGGAATTGGCCCCTAATTTCGAGATGG
            aaataac  putative branch site (score: 2)
            aaataacaaattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttcctttctattctttttgtttttcggcaaataacaaatttttatatgaatctgaatggaaattggtgtagATCCTGCATGCTACCAAAACAAACAAGAATGCCTTCAAGACTCTGATTGCGGCAGAGTACAGTGGCGTCCAAGTGGAATTGGCCCCTAATTTCGAGATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG