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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatctgactgcttctctgcttaacttggtcgtgatacttgtttgggagttcaaacatcctgggtaacattattgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA

Basic information

species Glycine max
transcript GLYMA14G13480.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 6
gtatgtatctgactgcttctctgcttaa--cttggtcgtgatacttgttt----------gggagttcaa-----acatcctgggtaaca--ttattgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA
|||||||| ||| |  |  | |||||||   |||  | |   ||||  ||          | | ||   |     | |   ||     ||   |||  |||| |||| ||||||||||| |||||||||||||| |  || || ||||| |||||||| ||||| || |||||||| |||||||||||||||||||| ||||||| 
gtatgtatgtgaat--taatgtgcttaatctttgagcattcaacttcatttttcatagcagagtgtctcattggcaaactttgaactccaatctatattcttacagGCAATCACAAGAACATTTTCAATGATGCAAAGGTACCTTGGTCAGAGTACCGTTATTACGACCCCAAGACTGTTGGCTTGGATTTTGAGGGAATGATAGC

upper sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 6
--------------------------------------------------------------gtatgtatctgactgcttctctgcttaacttggtcgtgatacttgtttgggagttcaaacatcctgggtaacattattgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA
                                                              || |    ||  |    | | || | || || |  |||  |   ||   ||| ||| ||  || |   | |   || |   |  ||||||| ||||||||||| |||||||||||||| || || ||||| |||||||| |||||||| |||||||| ||||| |||||||||||||| ||||||| 
gtaagtatgttgatgcaactattcttcatgacttgatgtacctaccaaaatcatgactcatagtcttgggctctcattgtttttggtgaaatttgaagtgtcaaa-gtggcggacttctaatttcat---tcattctacttgttaacagGTAACCACAAGAATATCTTCAATGATGCTAGGGTACCTTGGTCAGAGTACCGGTATTATGACCCCAAGACTGTTGGGTTGGATTTTGAGGGAATGATAGC

upper sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 6
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 7
--gtatgtatctgactgcttctctgcttaacttggtcgtgatacttgtttgggagttcaaacatcctgggtaacattattgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA
    ||     ||||  |     |  || | | | |   | | | | |||    |     |    |||   || | ||     |  ||||||||||||||||||| ||||||||||| |  || || ||||| || ||||| || |||||||| || ||| |||| |||||||||||||| ||||||| 
gtacattgtcttgaccacaaacatttttgagt-gatttggtttcatatttaaccgcctttatcaactgtacaa-aataccacat--cagGTAATCACAAGAATATCTTCAATGATGCCAAAGTTCCGTGGTCCGAATACCGCTACTATGATCCAAAAACAATTGGTTTGGATTTTGAGGGAATGATAGC

upper sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 8
gtatgtatctgactgcttctctgcttaacttggtcgtgatacttgt-ttgggagttcaaacatcctg-ggtaacattattgtctt-gcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA
                 |   |  |   |||| | | || | |||| |   |||| |  |  ||    |||   |  ||  |||| ||||||||||||||||||||||||||||||||||| || || |||||||| |||||||| ||||| || || |||||||||||||||||||| || ||||||  
----------------gtgagtattccccttgtttgggagatttgtgtcaagagtactgatttctcatggttgaagaatcatctttgcagGTAATCACAAGAATATTTTCAATGATGCTAGAGTTCCCTGGTCTGAATACCGATACTATGACCCAAAAACAGTTGGCTTGGATTTTGATGGGATGATATC

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|192316560|gb|FK006795.1|FK006795
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTCCTACCTGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTCCTACCTGGGgtatgtatct ... tgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACC
EST: gi|151403769|gb|EV273579.1|EV273579
EST:     AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTCCTACCTGGG                         GTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACC
genomic: AGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTCCTACCTGGGgtatgtatct ... tgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgtgatacttgtttgggagttcaaacatcctgggtaacattattgtcttgcagGTAATCACAAGAATATTTTCAATGATGCTAGTGTCCCATGGTCTGAGTACCGATATTATGATCCCAAGACAGTTGGCTTGGATTTTGAGGGCATGATAGA
                                 gggtaac  putative branch site (score: 3)
                                            ttgtctt  putative PPT
                                    taacattatt  TA-rich tract