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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctttcacttgtttctgctcccacaattctatattttatgtagttctttctgtatctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA

Basic information

species Glycine max
transcript GLYMA06G01520.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 3'ss of exon 14
gttctttcacttgtttctgctcccacaattctatattttatgtagttctttctgtatctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
                    ||      |||||||   |   |  || |   ||  |  |   || ||      |   | |||||  ||||||||||| ||| |||||||| || || || ||||| ||||||||  |||||||  |||| ||||| |    ||| ||||||||||| ||||||||||| |
-------------------gtctgtagcttctataccattaatgattttgattgagtaca-catgctaaacccctc--tctttttccccagTCCTCAGAACCTGTGGAGCTGACAGAGGCGGAGACTGAATATGCGATTAATGTGGTTAAGCACATATACAGTAGCCATGTTGTGTTGCAGTACAACTGTA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G459437_T02 (Zea mays), 3'ss of exon 2
----gttctttcac-ttgtttctgctcccaca-attctatattttatgtagttcttt---ctgtatctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
    |||  |  |  ||  || | || | |   |   |     ||||| |  |   |       || | ||||| | |   ||||  |      | ||||||  | ||||| || ||  | |||||||||||||| |||||  | ||||||||||| || || ||||||||| | || |||||| |||| |||||||| |
taaggttggtatatattacttgtccttctatggaagatgagcattatggacctgactgaatctcatttgatgtgctgtaactttttgttcgcacttccagTCAGCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTCATGAAGCATATTTTTGATGGACACGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 14
gttctttcac-ttgtttctgctcccaca-attctatattttatgtagttctttctgt---atctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
|||  |  |  ||  || | || | |   |   |     ||||| |  |   |   |   || | ||||| | |   ||||  |      | |||||| || ||||| || ||  | |||||||||||||| |||||  | ||||||||  | || || ||||||||| | ||||||||| |||| |||||||| |
gttggtatatattacttgtccttctatggaagatgggcattatggacctgactgaatctcatttgatgtgttgtaactttttgttcgcacttccagTCATCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G415729_T01 (Zea mays), 3'ss of exon 3
gttctttcac-ttgtttctgctcccaca-attctatattttatgtagttctttctgt---atctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
|||  |  |  ||  || | || | |   |   |     ||||| |  |   |   |   || | ||||| | |   ||||  |      | |||||| || ||||| || ||  | |||||||||||||| |||||  | ||||||||  | || || ||||||||| | ||||||||| |||| |||||||| |
gttggtatatattacttgtccttctatggaagatgagcattatggacctgactgaatctcatttgatgtgttgtaactttttgttcgcacttccagTCATCTGCACCTGTAGAATTGACTGAAGCTGAGACTGAATACTCAGTTAATGTTGTGAAGCATATTTTTGATGGACATGTTGTGCTCCAATACAACTGTA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: AT4G34450.1 (Arabidopsis thaliana), 3'ss of exon 13
gttctttcacttgtttctgctcccacaattctatatt-ttatgtagttctttctgtatctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
          | |   ||| |    |  |||| | || || |   |||  |    |||||  | || | |  | ||  |  || |||  ||||| ||   ||| |||||||| |||||||| || |||||||| ||||| |||||  |||| || || ||||| || ||||| ||||| |||||||||||||
--------gttaggggctgatttgtc--ttctgtgttattctaatgttaatggcttatcttgtttgcttta-acttgtactttctttttcagTCTTCTTTACCTGTGGAGCTAACTGAAGCAGAAACAGAATACGCTGTCAATGTTGTTAAGCATATCTTTGACAGTCATGTGGTGTTTCAGTACAACTGCA

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 14
gttctttcacttgtttctgctcccacaattctatattttatgtagttctttctgtatctaatgtggtatgtatt-----ttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
  ||     ||| |||   |   | |  |  |  |  |    || ||     |||  |||||   | |  ||||     ||  | || |||| |||||||||||||| || ||||| || ||||| || ||||||||||||||||||||  | || ||||||||||||||||||||||||||||||||||||||||
-gtcccctgctttttttcacatacgct-tcatgcacatggactaatttgaaatgttactaattcagaagttattcttttttcgttttatttatcagTCCTCAGCACCTGTAGAGCTGACAGAAGCAGAAACAGAATATGCTGTTAATGTTGTCAAGCACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA

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|193651708|gb|FK600381.1|FK600381
EST:     GGATGCTTTCGACCATTTCAGAGTGTGCAAACTTTGGGAAGCTTTTCAAG                         TCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAAT
genomic: GGATGCTTTCGACCATTTCAGAGTGTGCAAACTTTGGGAAGCTTTTCAAGgttctttcac ... tttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAAT
EST: gi|192308894|gb|FK002118.1|FK002118
EST:     GGATGCTTTCGACCATTTCAGAGTGTGCAAACTTTGGGAAGCTTTTCAAG                         TCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAAT
genomic: GGATGCTTTCGACCATTTCAGAGTGTGCAAACTTTGGGAAGCTTTTCAAGgttctttcac ... tttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatgtagttctttctgtatctaatgtggtatgtattttgatattttttaccagTCCTCAGCACCCGTGGAGCTCACTGAAGCTGAGACAGAATATGCTGTTAATGTCATTAAACACATTTTTGATAGGCATGTTGTGTTCCAGTACAACTGCA
                                            ttttttacc  CT-rich tract
                              tatgtattttgatatt  TA-rich tract