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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG

Basic information

species Glycine max
transcript GLYMA13G23230.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g43680.1 (Oryza sativa), 3'ss of exon 9
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagtt--ttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                                                           ||   | |  |     |   |  ||||| |    |   ||| |   |   |   |  ||     |  | ||||  ||||||| || ||| ||||  | || || |||||||| |||||||  ||||| || || ||||| || || |||||||||||||| |||||||||||||||
----------------------------------------------------------gtaagtacagcattgtcgattagttttctctttgctaggttgatatttgggcctctgattccaagggttattctacagATTGTGAGACCTGTTCGTTCGAAGCATTGTTCTACATGTGATCGCTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGGTATCTAATTGCATTGGCAAG

upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G024437_T02 (Zea mays), 3'ss of exon 9
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                                              | | |  || |  |   ||   ||   || |   ||||||||||  |   ||| |   | |     |||  | |   |||   |  |||| ||||| ||| ||||  | ||||| |||||||| ||||||| ||| ||||| || |||||||||||||| ||||||||||| |||||||| || |||
---------------------------------------------gtaagtcactcgattgagcaattta---attc---tctttctttgattgttattttcatagatcagatttcctatcatcttcattacagATAGTCAGACCTGTTCGTTCGAAACATTGTTCTACATGTGATCGTTGCGTGGAGCAGTTTGATCACCATTGCCCTTGGGTATCTAATTGCATAGGAAAG

upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G087806_T01 (Zea mays), 3'ss of exon 9
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                                              | | |  ||||  |  |||    |   ||     |||||| |||  |   ||| |  || |     |||  |      |||  |  |||| ||||| ||| ||||  ||||||| |||||||| |||||||  || ||||| || ||||| ||||| || ||||||||||| |||||||| || |||
---------------------------------------------gtaagtcacttgattgaacaattcagttatc----tctttccttgattgttattctcacagatcagatttcctaacatatttgttacagATAGTCAGACCTGTTCGTTCAAAACATTGTTCTACATGTGATCGCTGCGTGGAGCAGTTTGACCACCACTGCCCTTGGGTATCTAATTGCATAGGAAAG

upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G409934_T01 (Zea mays), 3'ss of exon 3
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctt--tagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                                                 | || || | |    |    |    ||    | |  | ||  |||    | ||||  |    |  | || ||||||  | ||  ||||||||||||||| | ||  ||||||| || ||||| || || |  ||||| || ||||| ||||| || || ||||||||||| ||||||||||| |||
-----------------------------------------------gtaagtttttctttattaagtaatctgtggg-gtttccccttaaattagcatttttctgaagtggcctcat-ttgcctagtattaatagATTGTCAGGCCTGTACGCTCAAAACATTGCTCTACATGCGACCGCTGTGTTGAGCAATTCGATCATCACTGCCCTTGGGTATCAAATTGCATTGGAAAG

upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G20350.1 (Arabidopsis thaliana), 3'ss of exon 9
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacac----agactacacatgcccatcttt-ctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                            | | ||||  ||  | | |  ||||||| | |  |     | || | || |   ||||  | ||    ||| | ||||||    |       | |||| | |||| || ||||| |||| ||||||||||| || |||||||| |||||||||| |||||| || ||||||||||||||||||||||||||||| |||||  |||| || 
---------------------------gtacctgctcaaattccgttttatgtctttcttcaatcttaacaccatacttaatcatcgatgctacatatttacttgttttggtc----cactgtgtttcattttattcagATTATCAGACCTCTTCGAGCTAAGCACTGTTCCACCTGTGATCGTTGTGTAGAGCAATTTGATCACCATTGTCCTTGGGTATCAAATTGTGTTGGAAAA

upper sequence: GLYMA13G23230.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv11s0118g00470.t01 (Vitis vinifera), 3'ss of exon 9
gttctttgctttctgttgattgtctgacttcttgctgtaaagctgatcaatgtcttgcatacacagactacacatgcccatctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                           | | || ||       |  |   || |||   |  |     |   ||     |  ||| | |    | | ||    |  |     ||     | |  || |  |||||||||||| |||||||| ||||| |||||||| ||||||||||  ||||| ||||| ||||| || ||||| |||||||| || |||||||||||||||
------------------------gtgccttttacttctggttt--ttgttgccttttttgtatgacttgttca-----acatttgtctattctaacttcagcctgatgtgattcctattcgatttgttattagATTGTCAGACCTCTTCGTGCAAAGCACTGTTCCACCTGTGATCGATGTGTCGAACAGTTTGACCATCATTGCCCTTGGGTGTCTAATTGCATTGGCAAG

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|15814634|gb|BI786909.1|BI786909
EST:     ATCCTGCTTTGCTAGCTGGAAACTGGTCCCAGCTTTGTGCAACATGCAAG                         ATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTG
genomic: ATCCTGCTTTGCTAGCTGGAAACTGGTCCCAGCTTTGTGCAACATGCAAGgttctttgct ... ttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctttctttgcattgaattgtttcatacacagttttatgttgccttttctttagATTGTCAGGCCTCTTCGAGCAAAACACTGTTCTACCTGTGATCATTGTGTGGAACAATTTGATCACCATTGTCCTTGGGTATCCAATTGCATTGGCAAG
                                      tgttgccttttcttt  CT-rich tract
                                 ttttatgtt  TA-rich tract