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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA

Basic information

species Glycine max
transcript GLYMA12G04820.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 14
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
                             | ||   | ||||   |   |  || |  | || | ||   |   |  |  |     |  |||| |   ||||| ||||||||||||||||| || || |||||||| ||||||||  ||||||| ||||||||||| |    | | ||||||||||| || |||||||| |
--------------------------gtctgtagcttctataccattaatgattttg-attg-agtacacatgctaaacccc----tctctttttccccagTCCTCAGAACCTGTGGAGCTGACAGAGGCGGAGACTGAATATGCGATTAATGTGGTTAAGCACATATACAGTAGCCATGTTGTGTTGCAGTACAACTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 14
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
||||  ||  |    | || |||       |   |   |||||       |  ||| | ||   |  | |  | ||  || | ||    | || || |||||| ||||  ||||| ||  | || ||||| || || |||||| |||| |||||||| |||||||||| |||  ||||||||||| | |||||||| || |
gttagcttggtgttcttttattttgttcccactgaaaatatat-------cactatgttctaccacttatgttttgactttttat----cctttttttcagTCATCAGCTCCTGTAGAATTGACCGAAGCTGAAACTGAATATTCAGTCAATGTTGTGAAGCACATTTATGACGGGCATGTTGTGCTCCAATACAATTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 14
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
|||  | ||  |   |  |  ||| |    | ||      |||   | |  || | ||    |   ||||  | |   || |  | | ||  |     ||||| || | |||||| ||  | |||||||| ||||| |||||  ||||||||||||| ||||| ||||||||| | ||||||||| | ||||||||||| |
gttggtatatattacttgtccttctatggaagatgggcattatggacctgactga-atctcatttgatgtgttgtaactttttgt-tcgcacttc---cagTCATCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G415729_T01 (Zea mays), 3'ss of exon 3
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
|||  | ||  |   |  |  ||| |    | ||      |||   | |  || | ||    |   ||||  | |   || |  | | ||  |     ||||| || | |||||| ||  | |||||||| ||||| |||||  ||||||||||||| ||||| ||||||||| | ||||||||| | ||||||||||| |
gttggtatatattacttgtccttctatggaagatgagcattatggacctgactga-atctcatttgatgtgttgtaactttttgt-tcgcacttc---cagTCATCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 14
gttattttac-ttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
|||  | ||  ||| ||||| | |  ||  |  | | | |  |  |   |       ||    |   ||||  | |   || |  |   ||| |     ||||| || | |||||| ||  | |||||||| ||||| |||||  |||| |||||||| ||||| ||||||||||| ||||||||| | ||||||||||| |
gttggtatatattacttcttctatggaagatgaacattatggacatggct-----gaatctcatttcatgtgttgtaactttttgt-ccgctcttc---cagTCATCTGCACCTGTAGAATTGACTGAAGCTGAGACCGAATACTCAGTGAATGTTGTGAAGCATATTTTTGATCGACATGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G459437_T02 (Zea mays), 3'ss of exon 2
----gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
    |||  | ||  |   |  |  ||| |    | ||      |||   | |  || | ||    |   |||| || |   || |  | | ||  |     |||||  | | |||||| ||  | |||||||| ||||| |||||  ||||||||||  | ||||| ||||||||| | || |||||| | ||||||||||| |
taaggttggtatatattacttgtccttctatggaagatgagcattatggacctgactga-atctcatttgatgtgctgtaactttttgt-tcgcacttc---cagTCAGCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTCATGAAGCATATTTTTGATGGACACGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 13
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
                   |||      | || |   || | | || ||    | | || ||   ||| |  | ||  ||    |||   ||  || |||||||||   |||||||||||| |||||||| || |||||||| || || |||||||||||||| || |||||  | ||||| |||||||| ||||||||||
-------------------gttaggggctgatttgtcttctgtgttattctaatgt-taatggcttatcttgtttgctttaacttgtactttctttttcagTCTTCTTTACCTGTGGAGCTAACTGAAGCAGAAACAGAATACGCTGTCAATGTTGTTAAGCATATCTTTGACAGTCATGTGGTGTTTCAGTACAACTGCA

upper sequence: GLYMA12G04820.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 14
gttattttacttagttcttgtttcaaaattatatactttatattttctttccttatatactgtaatatgtactatgtattctgatgttgcttt-cttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
       | |   | | || ||||| |      |  |  | ||   ||    | | ||  |   | ||  |  |  ||||||  | | | |||  ||||||||| |||| |||||| ||||| || ||||| || ||||||||||| ||||||||||| ||||||||||||||| ||||||||||||| || ||||||||||
------gtcccctgctttt-tttcacatacgcttcatgcacatggactaatttgaaatgttacta-attcagaagttattcttttttcgttttatttatcagTCCTCAGCACCTGTAGAGCTGACAGAAGCAGAAACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA

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|193330817|gb|FK293747.1|FK293747
EST:     GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAG                         TCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
genomic: GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAGgttattttac ... ttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
EST: gi|16106401|gb|BI894141.1|BI894141
EST:     GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAG                         TCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
genomic: GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAGgttattttac ... ttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
EST: gi|298193333|gb|HO033767.1|HO033767
EST:     GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAACTTTTTAAG                         TCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
genomic: GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAGgttattttac ... ttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
EST: gi|193471807|gb|FK434836.1|FK434836
EST:     GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAG                         TCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGA
genomic: GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAGgttattttac ... ttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGA
EST: gi|33390701|gb|CA853896.1|CA853896
EST:     GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAG                         TCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT
genomic: GGCTGCTTCTATCCATTCCCGAGTTTGCAAACTTTGGGAAGCTTTTTAAGgttattttac ... ttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttccttatatactgtaatatgtactatgtattctgatgttgctttcttatcagTCTTCAGAACCTGTGGAGCTTACTGAAGCGGAGACAGAATATGCAGTTAATGTTGTTAAGCACATTTTTGATCGGCATGTTGTGTTTCAATACAACTGCA
                                ttctgat  putative branch site (score: 3)
                                        ttgctttctt  CT-rich tract
      ttatatactgtaatat  TA-rich tract