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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtgtactctgttgatttgtgttacaaattccataggtactgtttgcaggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC

Basic information

species Glycine max
transcript GLYMA07G40060.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G048045_T01 (Zea mays), 3'ss of exon 9
-------------gtggtgtactctgttga-tttgtgttacaaa---ttccatag--gtactgtttgcaggtaaattatgaataatttaaattttggttct--ttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC
                 | | || |  |||  |   ||||  |    || |||||  || ||||    | || ||| ||  |  ||||   ||||| ||||   || ||||  || |  |  ||   |||||   ||| |||||||||||||| || |||   |||||||| || |  ||||||||||| ||||||||||| |||||||
gtaccattgctaatccatatgctttagtgagctcaggttaatagacttttcatagaagtgctgtaatgatgtgaat-attcaccatttgg-ttttgcttctggatgcagACACTCCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGGAGCCCTGATGGGCGAACATTTGCTACTGGCAACCAAGACAAGACATGCC

upper sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 5
gtggtgtactctgttgatttgtgttacaaattcc---ataggtactgtttgcaggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC
     |||| |||||   |    | | |  |  |    ||||          ||  |   |   | | |||| || |||  |    |||||||  ||| |||||| |||||||||||||||| ||||||||||||||| |||||||||||||||  ||| ||||| ||||||||||| ||||| || ||||
-----gtac-ctgtttcctaacataaaacttctcccagtagggggaaaaataagaaacggttccactcatttgaagttttttatcatgtagACCATCAGGCCTTTGTGTGGACACTTGGATTTCTCATTTGCATCTGCATGGCATCCTGATGGCAATATATTTGCCACTGGGAACCAGGACAAGACTTGCC

upper sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S376_49V6.1 (Physcomitrella patens), 3'ss of exon 9
--gtggtgtactctgttgatttgtgttacaaattccatagg--tactgtttgcaggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGC--------CTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC
   | ||||    | ||   |   |||| ||  || |  |   |   ||    || |   ||    |  || |||  ||   || |    |   |||||           ||||  | || || |||||||||||||||||||| || ||||| |||||||| ||| | ||||| || || || ||||| | ||| ||||
gttttgtgtgaggtttttggtaaggttaaaatatcaacggaattgaagtaaatagcttgttttaacaccatctaacgttgtattatccacatggtgtcagATTATATCAACTTTGAGAGGTCATTTGGATTACTCATTTGCATCAGCTTGGCACCCTGATGGACGTGTCTTTGCCACCGGAAATCAAGATACAACTTGCC

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|208308345|gb|GE102871.1|GE102871
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|254336522|gb|GR842701.1|GR842701
EST:     AGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: AGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|58022343|gb|CX709084.1|CX709084
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|58024987|gb|CX711728.1|CX711728
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|254327492|gb|GR837047.1|GR837047
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193584456|gb|FK543278.1|FK543278
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|254327491|gb|GR837046.1|GR837046
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193689306|gb|FK632665.1|FK632665
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193490569|gb|FK456394.1|FK456394
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGC
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGC
EST: gi|57575319|gb|CX548294.1|CX548294
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193308655|gb|FK277030.1|FK277030
EST:     TGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|58022583|gb|CX709324.1|CX709324
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|254341974|gb|GR853111.1|GR853111
EST:     GGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: GGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193348336|gb|FK309544.1|FK309544
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|193645157|gb|FK592967.1|FK592967
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|57575083|gb|CX548058.1|CX548058
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|209725666|gb|BW663155.1|BW663155
EST:     CAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: CAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|192332288|gb|FK023937.1|FK023937
EST:     TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGG
EST: gi|207732145|gb|GD706680.1|GD706680
EST:     TTGTTGGAGACAACC-AGAAGGGATACTAGTGGATTCTCAAACTGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGAATTACTCATTTG
genomic: TTGTTGGAGACAACCCAGAAGGGATACTAGTGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGA-TTACTCATTTG
EST: gi|193325781|gb|FK290220.1|FK290220
EST:     TGGATTCTCAAACNGGAAAG                         ACTGTCAAGCCTTTATGTGGACACTTGGATTAACTCATTTGCATCTGCGTG
genomic: TGGATTCTCAAACTGGAAAGgtggtgtact ... ttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATT-ACTCATTTGCATCTGCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cataggtactgtttgcaggtaaattatgaataatttaaattttggttctttgtagACTGTCAAGCCTTTATGTGGACACTTGGATTACTCATTTGCATCTGCGTGGCATCCTGATGGCCGTATTTTTGCTACTGGGAACCAAGACAAAACATGCC
                                             ttctttgt  CT-rich tract
                   taaattatgaataatt  TA-rich tract