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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag

Basic information

species Glycine max
transcript GLYMA17G04070.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 5'ss of exon 9
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcatt-------ttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag
 ||| |  ||||  |||| |||||||| |||||||| || || || || || ||||||||||||||  | || ||||||||||||||||| |||||||||||| |||||             |||  ||||  |   |||  |  | |||||      | |||||  |    | |   |||  ||   | | || |  |                                                                              
TAAACCTGATCTCCCTCGATTGCATGAGTGGCATTTCCGATCTGGACTGGATCGCTACATATGGATTGTGGGGATGATTTATGCTTATTACCATCCAACTgtatgtttcctgccaactgtgctatacttttacatagtgttcagttatagatgttctatttctttagttttatcaaatttcataaatcgcataaaagttg-----------------------------------------------------------------------------

upper sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag
 ||| || ||||| | || |||||||||||||| ||||| || || || || |||||||| |||||  | || ||||| ||||| ||||| |||||||||||| |||| | |   ||| ||||| |    |||     ||  | | |        || |||  |  ||    |  || |||  |  | ||   || ||       | |       |||  ||  ||  | |   |  | || | | |  || |                 
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtttttgaccatatattttttat---tgtagttgttctgtttc-------tttagattcatagaccccttggaggca--accacatgattgtttcaaagagcgtaaggaagttgtatt--ttggcattgatgaaatatcctgtc-tcag-----------------

upper sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G06550.2 (Arabidopsis thaliana), 5'ss of exon 9
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttctcattttatgtttttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag
 ||| | || ||| | | ||||||||| |||||||| || || || ||||| || |||||||||||||| || ||| | ||||| || || || ||||||||||||| |  ||  ||    ||      |  |||||  |    | || |   |  ||     |||||| |      | | |    || ||  |||||  ||| || | |                                                            
AAAACCTCAGCTTCCCCTCTTGCATGAGTGGCATTTCCGCTCTGGACTTGATCGGTACATATGGATAATCGGGATGCTATATGCATACTACCACCCAACTgtaagttcccaatactagaacttc-----acatcaactct---gttca-caaatggttagctcagtgataaagacttacc-gtttcatttccttgatta-tgtatcttatag----------------------------------------------------------

upper sequence: GLYMA17G04070.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 5'ss of exon 9
CAAATCACATCTTTCTCGCTTGCATGAATGGCATTTTCGTTCAGGGCTTGACCGCTACATATGGATAATTGGAATGATTTATGCTTATTATCATCCAACTgtaagtttct----cattttatgtt--tttgaaatatgtcaacatttagatccatcctctctttgatcgagtgatgattctgaagcaggaaaatatctctgatttctgtctcctcttttctttgctttcattttcctgagttgagtaccttattgtctgtcacatggtattataag
 |||  | |  |||| || |||||||| |||||||| || ||||| ||||| || ||||||||||||||||||||||| ||||||||||||||||| |||||||| |||     | ||||   ||  |||  ||||| |  |  |  |  |   | || |  |  |    | |||             |   ||||   | ||     | |  |  | |                                                         
AAAACAAAAGTTTTCCCGTTTGCATGAGTGGCATTTCCGCTCAGGTCTTGATCGTTACATATGGATAATTGGAATGATATATGCTTATTATCATCCTACTgtaagcttccatgcccttttgccttgttttccaatattttcaagtacaacttatttcttttatctacatggagatacagtccttatgaggtgatattaataatgggcatttgttgatgtag-------------------------------------------------------

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|193497704|gb|FK461650.1|FK461650
EST:     ATTTATGCTTATTATCATCCAACT                         GTTGAACGATGGATGGAAAAATTGGAGGAAGCAGAAATCAAGCGCAGAATA
genomic: ATTTATGCTTATTATCATCCAACTgtaagtttct ... gtattataagGTTGAACGATGGATGGAAAAATTGGAGGAAGCAGAAATCAAGCGCAGAATA