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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttattcaaatttcagagttcagtcttcggatctgaagttttgtaattagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA

Basic information

species Glycine max
transcript GLYMA13G43680.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 17
gtttattcaaatttcagagttcagtcttcggatctgaagttttgtaat-tagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
 | || | |  |||| |   ||  | |  | || |         | || ||| |    |    | |  || ||    ||    | ||   |  ||||| ||||| ||||||||| |||||||  |||||||| | ||||| || |||||  |||| |||||  |||||||||  ||||| |||||  | ||||||||||||
atatacttagttttctgcactctttttctgtatttcgtccaacttcatgtagagtctgttctcttctagcctca-gttcttgtttctctctcatatggcagTGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGATAGCCACTGATGCTGACTACAAGTTTGACCTAGCTGTGCAGCTTGGAAAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 18
gtttattcaaatttcagagttcagtcttcggatctgaagttttgtaattagtgctaatata---ttacctgcatcctaa---tcaaaatacttgatttta--tggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
                   | | || |     |   || ||||||| |   || |||| ||   ||   ||   || ||   | | |  | ||  ||||   | | |||||||| ||||| || |||||||| || ||| | || || ||||||||  |||| ||||||||| | |||||||||||||| ||  | ||||||||||  
-------------gtgccatcctgtttgtctgttcaaaattttgtagtggttgttaatttaaacttttatgtgccccaatgtttatatgatttacttttggcttgcagTGTGGCACATTTCCTTGAATCACGTGGCATGTTGGAGGAAGCCCTTGATATAGCCACTGACCCTAATTACAGATTTGATCTGGCTGTGCAGCTTGGAAGC

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G448913_T01 (Zea mays), 3'ss of exon 6
gtttattcaaatttcagagttcagtcttcggatctgaagttttgtaat-tagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
 | || | |  |||  |   ||  | |  | || |         | || ||| |    | | |   |||    |   ||    | ||   |  ||||| ||||| ||||||||| |||||||  |||||||| | ||||| || |||||  |||| |||||  |||||||||  ||||| |||||  | ||||||||||||
atatacttagttttttgcactctttttctgtatttcgtccaacttcatgtagagtctgt-tctcttctggcctcagttcttgtttctctctcatatggcagTGTTGCTCATTTTTTGGAATCGAGAGGTATGTTGGAAGAGGCTCTTGAGATAGCCACTGATGCTGACTACAAGTTTGACCTAGCTGTGCAGCTTGGAAAA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 21
-------------------------------------------------gtt--tattcaaatttcagagttcagtcttcggatctgaa-gttttgt--aattagtgctaatata-ttacctgcatcctaa--tcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
                                                 |||  ||  ||  | ||  || |||      || |   |  |||||    ||||   ||     || ||  |||  ||   |  ||||||| ||     || ||  || ||||| || ||| |||| ||||| || |||| ||||||||| || |||||||| ||||| |||||||||||||||||  | || |||||||| || | |
gtatgagaatgtgctttccctcgcattatggttacagctggattatggtgttagtaaacatgtatccaaggtcacataatggtttaaattgttttcctaaattcacgcattcctacttttctgattctcgacttcaaaatcctgttcgttttgtcagCGTGGCACACTTTTTGGAGTCACGTGGCATGACAGAAGATGCTCTAGAAGTAGCAACTGATCCTGACTACAGATTTGAGTTGGCCATACAGCTCGGTAGA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 17
-gtttattcaaatttcagagttcagt----cttcggatctgaagttttgtaattagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
  | || |   | |  |  ||| |       | |  | ||     |  ||  || |||   | | | |  ||  ||     |    | | ||       || |||||| ||||||||  |||| ||||| || ||||| |||||||| || ||| | || || || |||||||||||||||||  | || ||||| || || | |
gatctact--gactctattgtttaacatagttgcacacctatcaatgggtgtttcgtg--gaca-actctctttatttattttcggacaattttcgacttgttagTGTTGCTCATTTCTTGGAGTCACGGGGAATGATTGAAGATGCTCTGGAAATTGCAACAGATCCTGACTACAGATTTGAGTTGGCCATACAACTGGGTAGA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 17
---gtttattcaaatttcagagttcagtcttcggatctgaagt--tttgtaattagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
       |||    || ||    | | ||||    | | || |  ||| |   |||| || | || ||  |||     | || || |||  |  |  | || ||||||||||| |||  ||||| | ||||||||| | || ||||| || ||||| || || || |||||||| |||||||||||||| |||||||| || | |
tgaccgcattttttttcca---cttattcttgttgtttcaattcctttttccatagttctgaaat-ttgactgagatgtgatgaagatatattttact-tgctagTGTGGCTCGTTTCTTGGAAGCTCGAGGTATGCTGGAGGATGCACTGGAAGTTGCCACAGATCCTGACTATAGATTTGATCTAGCTATACAGCTAGGCAGA

upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 17
gtttattcaaatttcagagtt-cagtcttcggatctgaagttttgtaattagtg--ctaatatattacctgcatcctaatcaaaatacttgattttatgg-tagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
      | || ||| | |    | |     | | |  |  |    || || |    ||  ||  || | ||||| ||||| | || | ||| ||  || | ||||||||||| |||  |||||||||| ||||||||||| |||||||| |||||||||||||||||||| ||| ||||||| |||||||| |||||||| | |
----tctgaacttttatacccgctgaaaatgaaacaaagatgaattattttgcagtcttttaagtttcttgcatgctaataagaaaagttgtttgaattgctagTGTGGCTCGTTTCTTGGAATCACGGGGTATGATAGAGGATGCCCTGGAAGTAGCTACTGACCCTGATTACCGATTTGAGCTAGCAATGCAGCTTGGCAGA

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|298199623|gb|HO043500.1|HO043500
EST:     GAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAG                         TGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGT
genomic: GAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAGgtaggactta ... tttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGT
EST: gi|151398221|gb|EV268099.1|EV268099
EST:     GAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAG                         TGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGT
genomic: GAAAGGGCCAATGAAATTCTACCATCAATCCCCAAAGAGCATCATAACAGgtaggactta ... tttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattagtgctaatatattacctgcatcctaatcaaaatacttgattttatggtagTGTGGCTCATTTTCTGGAATCACGAGGTATGATAGAAGATGCCCTTGAAGTAGCTACTGACCCTGACTACAGATTTGATCTAGCAATACAGCTTGGAAAA
                            taatcaaaatacttga  TA-rich tract