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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag

Basic information

species Glycine max
transcript GLYMA20G38030.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os04g21660.1 (Oryza sativa), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagac-tcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
||| |||||||||||| |||||||| || || ||||| ||  | |||||||||||||| || |||||||||||||||||||||| |||||  ||||||||||||     | |||| |  | |   | | ||    |||  |   ||||       |  | | | ||   ||||    | |  |  || |   |  |   |   ||||            
CAAGACTTGTTCGTGATGCCTTTCAGCTTGCTAAAGAGAAAGCCCCATGCATTATTTTCATTGATGAAATTGATGCAATTGGAAGCAAGCACTTTGATAGgtat-----gacaaaca--tggtcgttccttcatcatttcccacttttgaatatgtgaacaaatacactaggtcttttctgttaatttctttccagcaattgtttgt------------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g56000.1 (Oryza sativa), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaatt-gacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
|||| ||||| ||||| |||||||| || ||||| || || || || ||||| |||||||| ||||||||||| ||||||||||| |||||||||||||||||  |  | |||     ||    | |    ||||| | ||| | || ||   | |  || |   |     ||||  | |    | | ||                             
CAAAGCTTGTCCGTGATGCCTTTCAGCTTGCAAAGGAGAAATCCCCCTGCATCATTTTTATTGATGAAATTGACGCAATTGGAACAAAGCGTTTTGATAGgtac-atttagcattgtctttatca-atgcatgcaactagacatattattgttcacagtataataaact--gtaattttttcctgctacag----------------------------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G027282_T01 (Zea mays), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
| || |||||| | || || ||||| || || || || ||  | || ||||| || ||||| |||||||||||||| |||||||| ||||||||||| |||||  |  |   |   | || |  || || |  | | || ||||  |  | ||  |        ||  |  | |  |    ||   ||||  |||||  |  || |  |         
CTAAGCTTGTTAGAGATGCTTTTCAGCTTGCTAAGGAGAAAGCCCCGTGCATCATCTTTATTGATGAAATTGATGCCATTGGAACAAAGCGTTTTGACAGgtac-attttttatttagtttgtcatccagt--ctaatgtctttcctaacacctttt------aacctacatcagtt----tgtgaccaagtttgatagacattttaacaagc-----

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg-gcaaaaaattagatatacatttgcaattgacttttttttccc--------ccctctagag-----agactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag-------------------------------------------------------------------
|||| ||||| || || || || || || || ||||| ||  | || || ||||| ||||| ||||| || ||||| ||||| ||||| |||||||||||||||    ||    | |  ||   |  |    ||   ||     | ||||  |        | || || ||     | |      |    ||||  || ||  | |    | | | ||     | | || |                                                                    
CAAAGCTTGTCCGGGATGCATTCCAGCTTGCCAAAGAGAAAGCTCCTTGTATTATATTTATTGATGAGATAGATGCCATTGGCACCAAACGTTTTGATAGgtatgttttgtatgacattttcagttcatgcatgattttattcctgttttggctgatgatactctttataggatgaaaatgttaatcgcctatacaggatcagagcactttttttgtttcaatttagtgtaaacaaatcattcttattaggaagaagcttatctgatgcatgctccataattttgttctcttggtacag

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
|||| ||||| ||||| ||||||||||| || ||||| ||  | || |||||||| || ||||||||||| ||||| ||||| || |||||||| || |||||  |           |||  | || ||| |     ||   ||| |   |    |         ||||  | | ||    |||||   |                            
CAAAGCTTGTCCGTGATGCCTTTCAACTTGCCAAAGAGAAAGCTCCGTGCATTATCTTCATAGATGAAATCGATGCCATTGGTACAAAGCGTTTCGACAGgtacaaatctttttctgattcca-attcatgtatttctgcactttctcagctattt--------gctcaaatcacattctttggttgagagtacag----------------------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
|||||||||| ||||| || || |  || |||||||| || || || || ||||| || |||||||| ||||| ||||| || || ||||||||||||||||| |  ||  | | |     |  |||  | |   |||   | ||| |     |   |   ||   | |  |    || ||                                     
CAAAACTTGTCCGTGATGCTTTCCTGCTTGCAAAAGAGAAATCCCCTTGTATTATATTCATAGATGAGATTGACGCAATAGGGACAAAGCGTTTTGATAGgtact--ctatctagagtcatgtcataactattttatt--ttctttctgatgactaatgctgacttttaattggcttacag-------------------------------------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttc--------ccccctctagagagactcaggtaaaat-----atagtggttccaaccttgatgtatcttgtggctgattgcag
| |||||||| ||||| |||||||| || || ||||| || || || ||||| ||||||||||||||||||||||| || || || ||||| |||||||||||  | |    |     ||||   ||||| |   || ||  ||||| ||               |  |   |   |||| || |       ||        ||  |    | |  ||    | |||||||
CGAAACTTGTCCGTGATGCCTTTCAGCTTGCTAAAGAGAAATCTCCTTGCATCATTTTTATAGATGAAATTGATGCCATAGGCACAAAGCGGTTTGATAGgta--aaccattattggtttagcactacatctttcat-gatatttttatcaaaatggatttggattgaaattatcaaggtgaactcatgagcagcctccttgactatagacttttctgccttttattgcag

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ37626 (Selaginella moellendorffii), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagat--atacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
|||| || ||  | || |||||||| || |||||||| ||| | || ||||| ||||| || |||||| | || || ||||| ||||| ||||||||||||| |   ||   ||   |   |     |  | |  || | |||||   |                                                                       
CAAAGCTCGTAAGAGATGCCTTTCAGCTGGCAAAAGAGAAGGCGCCCTGCATCATTTTCATCGATGAAGTCGACGCTATTGGGACCAAACGTTTTGATAGgtttggtctcaaaacggacacggccggtttactaacagt-gacttacatacag-------------------------------------------------------------------

upper sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ15061 (Selaginella moellendorffii), 5'ss of exon 6
CAAAACTTGTTCGTGACGCCTTTCAACTAGCAAAAGAAAAGTCACCATGCATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctggcaaaaaattagatatacatttgcaattgacttttttttcccccctctagagagactcaggtaaaatatagtggttccaaccttgatgtatcttgtggctgattgcag
|||| || ||  | || |||||||| || |||||||| ||| | || ||||| ||||| || |||||| | || || ||||| ||||| ||||||||||||| || |     |||     |        ||| | |        ||     |                                                                  
CAAAGCTCGTAAGAGATGCCTTTCAGCTGGCAAAAGAGAAGGCGCCCTGCATCATTTTCATCGATGAAGTCGACGCTATTGGGACCAAACGTTTTGATAGgt-ttggtctcaaaacggacaccggccggtttactaacagtgacttacatacag----------------------------------------------------------------

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|298189083|gb|HO037486.1|HO037486
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|208207319|gb|GE002158.1|GE002158
EST:     A-TATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTCAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|208192404|gb|GD988796.1|GD988796
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTCAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|7233106|gb|AW568456.1|AW568456
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|192327046|gb|FK015213.1|FK015213
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATCGCTTAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|192317514|gb|FK008966.1|FK008966
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|208335595|gb|GE137586.1|GE137586
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTCAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
EST: gi|298174321|gb|HO017657.1|HO017657
EST:     ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAG                         TGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA
genomic: ATTATTTTTATAGATGAAATTGATGCAATTGGAACCAAGCGTTTTGATAGgtattagctg ... ctgattgcagTGAAGTAAGTGGAGACAGAGAGGTCCAACGGACAATGTTAGAATTGCTTAA