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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagattctttaactgttatctctcggatatgctttctgttctactttcttgaagttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT

Basic information

species Glycine max
transcript GLYMA03G14690.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 10
gtaagagattctttaactgttat----ctctcggatatgctttctgttctactttcttgaagttatgtgccattttt----tttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
||| || |||  ||  ||| | |     |||    | ||     | |     ||     ||||      |   |||     || ||||||| || ||||| ||||| || |||||||||||||| ||||| || ||||| ||||| || || |||||||||||||||||||||||||| || || |||
gtatgacatttcttgtctgctttgcaattctgtactctgtacaatttctggattcaacaaagtggctcacttctttgcatattgacagGTACAGTATGGTTTTGGCTGATAATGTTGATGGTGGAGATGACCTCGATCTTATTGTTACTACCATGAATGGCAATGTCTTCTGCTTCTCCACTCCCTCT

upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G479744_T01 (Zea mays), 3'ss of exon 6
------------gtaagagattctttaactgtt--atctctcggatatgctttctgttc--tactttcttgaagtta------tgtgccatttttttta-cagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
             |    | || | ||  ||||  || ||   | |  |  ||  || |   | || | | ||||        |||  || |||   |  |||||| |  ||||| ||||| || || || |||||||| ||||| |||||||| ||||| || || ||||||||||| |||||||||||||| || | ||| 
gtatgccttatcttctttgcttttctagatgtttgatatcattgctggggattgggtacatcatttccataaagtgggctgattgttgcactttgactgtcagGTACACTATGGTTTTGGCTGATAACGTGGATGGTGGAGATGACCTTGATCTTATTGTTACCACTATGAATGGCAACGTCTTCTGCTTCTCCACTCAATCA

upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G105976_T01 (Zea mays), 3'ss of exon 2
---gtaagagattctttaa-ctgttatctctcggatatgctttc---tgttctactttcttgaag-------------ttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
   | ||   ||||| |   |||  |  | | ||      |||    |  | ||||| | | ||              || | |||  |||   | ||||||| | |||||| ||||| |||||||| ||||| || || ||||||||||| ||||| || || ||||| ||||| |||||  |||| || || || || 
tatgcaatttattctctgctctgcgagattttggtagcatttttgggtactgtacttacatcaataaagtgcgctcacttctttgcactttgactgacagGTACACCATGGTTTTGGCTGACAATGTGGATGGCGGAGACGATCTTGATCTTATTGTTACTACTATGAACGGCAACGTCTTTAGCTTTTCCACTCCCTCA

upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G09090.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaagagattctttaactgttatctctcggatatgctttctgttctactttcttgaagttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
|||||  | | ||     | |  |||||||  | |   | |  | || | | ||||       || | ||    |||||| || |||||||||||||| || |||||||| ||||| |||||||| ||||| |||||| |||| |||||||| || ||||| ||||||||||| || |||
gtaagtcactttt-----gcttcctctcgg-cacgtaatat-ctttagtattttgaccaccaatgtctttcgagttacagATACAGCATGGTCTTGGCTGATAATGTTGACGGTGGAGATGATCTCGATCTTATTGTCTCAACTATGAATGGAAACGTCTTTTGCTTCTCAACGCCTTCT

upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 10
gtaagagattctttaactgttatctctcggatatgctttctgttctactttcttgaagttatgtgccat--------tttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
|||||  || ||  | ||  ||| ||  |  ||   || |||||  | |||    || || | |   ||         ||| |||||| |||||||||||| |||| ||||||||||||||||| |||||||||||||| ||||| ||||| |||||||||||||| || ||||| ||||| ||  ||
gtaagttatcctcca-ctactat-tcatgtttagttttactgtttaatttttcaaaatttgtttaaaatataaatgcctttattacagATATAGCATGGTCCTGGCGGACAATGTTGATGGTGGAGATGATCTTGATCTTATTGTTACAACCATGAATGGCAATGTATTTTGCTTTTCAACTCCTGCT

upper sequence: GLYMA03G14690.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S334_25V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------gtaagagattctttaactgttatctctcggatatgctt-tctgttctactttcttga-----agttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
               ||    ||| |  |  |    |   | |  || |||| |  ||  | ||||    |      || |  | |   |    |  |||||||||||||||  | ||||||||||| ||||| || |||||  | ||| | ||||||||||| |||||||| ||||| |  || |||   || ||  ||
ttacattacattttttacatcattttcgagattcggttagtagtgtaggcttgtacgtagtgctttggcaaccaatggtaacctccgtctacactcgcagGTATAGCATGGTGCTAGCAGACAATGTGGATGGAGGCGATGACTTGGATTTGATTGTCACAACCATGAATGGTAATGTTTATTGTTTCCAGACACCTGCT

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|208150473|gb|GD950322.1|GD950322
EST:     ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTC                         GTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT
genomic: ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTCgtaagagatt ... ttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT
EST: gi|193360615|gb|FK325931.1|FK325931
EST:     ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTC                         GTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT
genomic: ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTCgtaagagatt ... ttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT
EST: gi|7588667|gb|AW704458.1|AW704458
EST:     ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTC                         GTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT
genomic: ATTGATGGACCTACTGGATGTGCTGATGCTGTTGACATTGGTGAAACTTCgtaagagatt ... ttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcggatatgctttctgttctactttcttgaagttatgtgccattttttttacagGTATAGCATGGTCTTGGCAGACAATGTTGATGGTGGGGATGATCTTGATCTAATTGTCACAACAATGAATGGCAATGTCTTCTGCTTCTCAACCCCATCT
                                        ccatttttttt  CT-rich tract
                                          attttttttaca  TA-rich tract