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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcatcaacattctatcctctaacgccataaatcaaacattttccgtgtttttcatcattacttggatgtaaattttgaattttgtagcttcacagcaagtgggtacacttggttttttctatggtgtaatgtatttgcactttgcagcatgtatgtgtgtatatattcacttggtttaactatctgtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTTGATGTGAGGGCTGGCTTTTTCAGAAATTACCTGCTTCCCATGGGAAAGG

Basic information

species Glycine max
transcript GLYMA12G08670.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08670.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G44890.1 (Arabidopsis thaliana), 3'ss of exon 1
gttgcatcaacattctatcctctaacgccataaatcaaacattttccgtgtttttcatcattacttggatgtaaattttgaattttgtagcttcacagcaagtgggtacacttggttttttctatggtgtaatgtatttgcactttgcagcatgtatgtgtgtatatattcacttggtttaactatctgtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTTGATGTGAGGGCTGGCTTTTTCAGAAATTACCTGCTTCCCATGGGAAAGG
                                                                                         | ||||      |  | || | | | ||    || || |    ||||   |     || || | ||       ||    |  |  | ||||   | ||| | |     | |||||||||| || |||||||| ||| | || |||||||||||| | ||||||||||  ||||| ||||||||||| | |||  | || |  |||||||
-----------------------------------------------------------------------------------------gtttcaagtagtgaagataaattggtttgaagctttgtttctgtgta---gagaaatggagtaagtgaaacactaatggtaaatcttgttttg-tgtctttaa-----gGTAATTTTGAAAGAGGATGTGACGGATTTGGGTAAGCAAGGGCAATTACTTGATGTGAAAGCTGGATTTTTCAGAAACTTCCTCTTGCCTACTGGAAAGG
















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|11687696|gb|BF595372.1|BF595372
EST:     GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAA-GGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCT
EST: gi|23063991|gb|BU578764.1|BU578764
EST:     GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
EST: gi|151399558|gb|EV269429.1|EV269429
EST:     GTGCGCGCTTCTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
EST: gi|13181262|gb|BG352602.1|BG352602
EST:     GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
EST: gi|298189820|gb|HO038223.1|HO038223
EST:     GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGAAGATGTGACTGATGT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGT
EST: gi|7796407|gb|AW781804.1|AW781804
EST:     GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAG                         ATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT
genomic: GTGCGCGCTTTTCGGTCTTCGCTCAAAAGAAGGCAAAGAAACTTCGGAAGgttgcatcaa ... gtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcagcatgtatgtgtgtatatattcacttggtttaactatctgtgaaatcagATAATTTTGAAGGAAGATGTGACTGATGTAGGAAAGCAAGGGCAACTTCTTGATGTGAGGGCTGGCTTTTTCAGAAATTACCTGCTTCCCATGGGAAAGG
                                 gtttaac  putative branch site (score: 3)
                 tgtatatatt  TA-rich tract