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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tgtaagtaatgattttcatgacatgatgtggtgattttatttttgataaagtgatagttcaacaggtcctaatttaaatatactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA

Basic information

species Glycine max
transcript GLYMA18G46390.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46390.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g58580.1 (Oryza sativa), 3'ss of exon 8
tgtaagtaatgattttcatgacatgatgtggtgattttatttttgataaagtgatagttcaacaggtcctaat-ttaaatatactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA-
         | |   |  |  | | ||           || |   | ||| |  | |||  |       || |  |  ||    |  |||||| ||||| ||||| ||||||||||| |||||| ||||||||||||| |  ||  | ||||| || ||||| || |||||||| ||||| 
--------gtaagccttctatcctcatacaa-------atgtgccagaaattattggtttcatgatatttactgctgtatcactttaacagGTGTTCCCACAAGGCTGGGACAAAACTTACTGCTTGAGATATCTTGAGGAATTTCAAGAAATCCATTTCTTTGGGGACAAAACCTACAAG

upper sequence: GLYMA18G46390.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g58580.2 (Oryza sativa), 3'ss of exon 8
tgtaagtaatgattttcatgacatgatgtggtgattttatttttgataaagtgatagttcaacaggtcctaat-ttaaatatactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA-----------
         | |   |  |  | | ||           || |   | ||| |  | |||  |       || |  |  ||    |  |||||| ||||| ||||| ||||||||||| |||||| ||||||||||||| |  ||  | ||||| || ||||| || |||||||| |||||           
--------gtaagccttctatcctcatacaa-------atgtgccagaaattattggtttcatgatatttactgctgtatcactttaacagGTGTTCCCACAAGGCTGGGACAAAACTTACTGCTTGAGATATCTTGAGGAATTTCAAGAAATCCATTTCTTTGGGGACAAAACCTACAAGGTGATATGTA

upper sequence: GLYMA18G46390.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G165535_T05 (Zea mays), 3'ss of exon 9
tgtaagtaatgattttcatgacatgatgtggtgattttatttttgataaagtgatagttcaacaggtcctaatttaaatatact-ccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA-
 || |||         ||  |    ||||  | |||||   ||  |   | ||| |     |||  | |||||   | || |      ||||| || || ||||||||||||||||| || ||| ||||||||||||| |  ||  | ||||| || ||||| || || || || ||||| 
-gtgagtctcctagaccaccagtacatgtatttatttt--cttgaaatgattgaaatcatgacatttactaatgccactaaaaaattccagGTATTTCCCCAAGGTTGGGACAAAACTTATTGCTTGAGATATCTTGAGGAATTTCAAGAAATCCATTTCTTTGGGGATAAGACCTACAAG

upper sequence: GLYMA18G46390.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0046g03520.t01 (Vitis vinifera), 3'ss of exon 8
---tgtaagtaatgattttcatgacatgatgtggtgattttatttttgataaagtgatagttcaacaggtc-ctaatttaaatatactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA-
    ||    | | || || ||    || | || |||||  |    |  ||     ||   | ||    |  ||  |   |||       |||||||||||| ||||| |||||||| ||||||||| ||||||| ||||||| |||   |||||| |||||||| || || ||||| ||| | 
gtgagtgtccattcatctttatttt-tgctttgatgattcgaaaactagtat--caatgactgaatgtattgctggtcataatgcttgtgacagGTTTTCCCCCAAGGCTGGGACAAGACATACTGCTTGAGATACCTTGATGATTTTCCTGAAATCCACTTCTTTGGCGATAAAACATACGAG

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|7284889|gb|AW597376.1|AW597376
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAAATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|213593867|gb|DB981335.1|DB981335
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|151402864|gb|EV272677.1|EV272677
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192298879|gb|FG987624.1|FG987624
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGACGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|213592632|gb|DB979423.1|DB979423
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|22928887|gb|BU546026.1|BU546026
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192306997|gb|FG999988.1|FG999988
EST:     CTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|13790673|gb|BG653264.1|BG653264
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|31469416|gb|CD411444.1|CD411444
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGC
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192306982|gb|FG999987.1|FG999987
EST:     CTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192321031|gb|FK013519.1|FK013519
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|151394726|gb|EV264597.1|EV264597
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192299912|gb|FG991786.1|FG991786
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|151402943|gb|EV272756.1|EV272756
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAG-ACAGATAAGTTTTGA                         TGTTT-CCCTCAAGGTTGGGACGAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|31467953|gb|CD409981.1|CD409981
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
EST: gi|192303884|gb|FG998236.1|FG998236
EST:     TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGA                         TGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG
genomic: TTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAtgtaagtaat ... atactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttatttttgataaagtgatagttcaacaggtcctaatttaaatatactccacaGGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATATCTTGATGGTTTCAATGAAATTCACTTCTTCGGTGACAAAACTTACAA
                                tcctaat  putative branch site (score: 2)
                                   taatttaaatatact  TA-rich tract