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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagattgcagatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG

Basic information

species Glycine max
transcript GLYMA17G11600.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g43680.1 (Oryza sativa), 3'ss of exon 9
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacag-attgcagatgccggtctttcctttgct--ttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                                                        | |   |||| ||||  |||    || ||  |||||||   |  ||  ||  ||     |||  | |  |  | |||| |||||||| || ||| ||||  | || || ||||| || |||||||| ||||| || || ||||| || || |||||||||||||| |||||||| ||||||
--------------------------------------------------------gtaagtacagcattgtcgat--tagttttctctttgctaggttgatatttgggcctctgattccaag--ggttattctacagATTGTGAGACCTGTTCGTTCGAAGCATTGTTCTACATGTGATCGCTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGGTATCTAATTGCATTGGCAAG

upper sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagattgcagatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                                              | | |  || |  |   ||  ||    || |      || ||||| ||   ||| |  |  |    ||||  | |  ||||   | ||||| ||||| ||| ||||  | ||||| ||||| || ||||||||||| ||||| || |||||||||||||| ||||||||||| |||||||| || |||
---------------------------------------------gtaagtcactcgattgagcaattta---attct----ctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG

upper sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G087806_T01 (Zea mays), 3'ss of exon 9
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagattgcagatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                                              | | |  ||||  |  |||  |  ||| |  |  |||||||||   | | | || |     |    ||||  |    | |||  | ||||| ||||| ||| ||||  ||||||| ||||| || |||||||| || ||||| || ||||| ||||| || ||||||||||| |||||||| || |||
---------------------------------------------gtaagtcacttgattgaacaatt--cagttatc--tctttccttgattgtta-ttctcacagatcagatttcctaacatatttgttacagATAGTCAGACCTGTTCGTTCAAAACATTGTTCTACATGTGATCGCTGCGTGGAGCAGTTTGACCACCACTGCCCTTGGGTATCTAATTGCATAGGAAAG

upper sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G20350.1 (Arabidopsis thaliana), 3'ss of exon 9
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacac----agattgcagatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                            | | ||||  ||  | | |  ||||||| | |  |     | |    |  |     ||  | ||     || | ||||||||  |       | ||||   |||| |||||||| |||| ||||||||||| || |||||||||||||||||||||||||| || ||||||||||||||||||||||||||||| |||||  | || || 
---------------------------gtacctgctcaaattccgttttatgtctttcttcaatcttaacaccatacttaatcatcgatgctacatatttacttgttttggtc----cactgtgtttcattttattcagATTATCAGACCTCTTCGAGCTAAGCACTGTTCCACCTGTGATCGTTGTGTAGAGCAATTTGATCACCATTGTCCTTGGGTATCAAATTGTGTTGGAAAA

upper sequence: GLYMA17G11600.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv11s0118g00470.t01 (Vitis vinifera), 3'ss of exon 9
gttctttgctttcttttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagattgca-gatgccggtctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                           | | || ||       |  |   || |||   |  |    |||    |     |||| | ||   |||     || | ||     | |  ||| | |  || |  | |||||||||| |||||||| ||||| |||||||||||||||||||| ||||| ||||| ||||| || ||||| |||||||| || |||||||| ||||||
------------------------gtgccttttacttctggttt--ttgttgccttttttgtatgacttgttcaacatttgtctattcta-acttcagcctgatgtg-----attcctat-tcgatttgttattagATTGTCAGACCTCTTCGTGCAAAGCACTGTTCCACCTGTGATCGATGTGTCGAACAGTTTGACCATCATTGCCCTTGGGTGTCTAATTGCATTGGCAAG

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|23731604|gb|BU763933.1|BU763933
EST:     ATCCTGCTTTGCTAGCTGGAAATTGGTCCCAGCTTTGTGCAACATGCAAG                         ATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTG
genomic: ATCCTGCTTTGCTAGCTGGAAATTGGTCCCAGCTTTGTGCAACATGCAAGgttctttgct ... ttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttcctttgctttgaattgttttgcacacaattttatgttgtcttttcttcagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCCACCTGTGATCGTTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATCGGCAAG
                                      tgttgtcttttcttc  CT-rich tract
                               aattttatgtt  TA-rich tract