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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctaaacttcatgtttccttgttggatgagatgcaactggttctggttcatttcatttctcaaccttgatggctaatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATCTTTTTACATGTCTTTGGTTCAATGAAGTTGACCGATTCACTTCTAGGGA

Basic information

species Glycine max
transcript GLYMA13G31260.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G31260.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g45490.1 (Oryza sativa), 3'ss of exon 7
gtaagctaaacttcatgtttccttgttggatgagatgcaactggttctggttcatttcatttctcaaccttgatggctaatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATCTTTTTACATGTCTTTGGTTCAATGAAGTTGACCGATTCACTTCTAGGGA
|| ||    |  ||||       ||  | |     | ||  |  ||   |   |||| |  | ||    |||     |  |||  |||||| |||||||| ||||| ||  |  |||||||  ||||||| |   |||| || ||||| ||||||||||||||||||||||| ||||| || |||||
gtcagt--gatctcattgaagtatggcgaaaacagttcagttactttctgag-attttaactgtcctttttgc--attggttt--agATGTCCCTGAAGGTTGTGTCATCATCAGAGAGCACATTCCCATCACGAATCTCTTCACATGCCTTTGGTTCAATGAAGTTGACCGTTTCACCTCCAGGGA

upper sequence: GLYMA13G31260.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM5G891056_T01 (Zea mays), 3'ss of exon 7
gtaagctaaacttcatgtttccttgttggatgagatgcaactggttctggttcatttcattt-ctcaaccttgatgg---ctaatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATCTTTTTACATGTCTTTGGTTCAATGAAGTTGACCGATTCACTTCTAGGGA
|||      ||||| |   ||||  |  | |||  |   | |  ||||    |  || |  | |   |  |   |     || |||  |||| || || || || ||||| ||| |  | || ||| | ||||| |   |  | |||||||| ||||||||||||||||||||||| ||||| || || ||
gtagtt---acttc-tccctcctcatccg-tgacctattaatatttctaacactgtttacctgcctgatatcagtatactctgattgacagACGTCCCGGAGGGCTGTGTGATAATTAGGGAACATATCCCCATAACAAACTTGTTTACATGCCTTTGGTTCAATGAAGTTGACCGCTTCACGTCCAGAGA

upper sequence: GLYMA13G31260.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G28240.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagctaaacttcatgtttccttgt-tggatgagatgcaactggttctggttcatttcatttctcaaccttgatggctaa--tttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATCTTTTTACATGTCTTTGGTTCAATGAAGTTGACCGATTCACTTCTAGGGA
||| |     ||| |  ||    ||| |  |          | || ||     |   | || |    | ||  |||| |    | |||||| || || || || ||||| ||  || |||||||||||||||| ||  | || || || |||||||||||||| ||||||||||||||||||||||| ||
gtatgtct--ctttagcttattctgtctaaaatccccttttcgggatcaaacactaataatatagacaactatatggttgggctatgcagACGTACCCGAGGGTTGTGTCATTTTAAGAGAGCATGTTCCCATAAGCAACCTCTTCACTTGTCTTTGGTTCAACGAAGTTGACCGATTCACTTCTAGAGA

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|58025097|gb|CX711838.1|CX711838
EST:     GAATGAAGGACTGACTCCATATACAGAGGCCAAACTTCCTCTTATAAGTG                         ATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATC
genomic: GAATGAAGGACTGACTCCATATACAGAGGCCAAACTTCCTCTTATAAGTGgtaagctaaa ... taatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATC
EST: gi|298168719|gb|HO009649.1|HO009649
EST:     GAATGAAGGACTGACTCCATATACAGAGGCCAAACTTCCTCTTATAAGTG                         ATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATC
genomic: GAATGAAGGACTGACTCCATATACAGAGGCCAAACTTCCTCTTATAAGTGgtaagctaaa ... taatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatgcaactggttctggttcatttcatttctcaaccttgatggctaatttgcagATGTTCCTGAAGGATGTGTAATAGTACGAGAGCATGTTCCCATTAGTGATCTTTTTACATGTCTTTGGTTCAATGAAGTTGACCGATTCACTTCTAGGGA
                                          ggctaat  putative branch site (score: 3)
                     atttcattt  TA-rich tract