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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

Basic information

species Glycine max
transcript GLYMA07G38050.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 22
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttg--tgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                                                          | | |    ||    ||  ||  |     |   | |    |||||   ||  || | ||  |   |     || ||| | || ||| | |||||||| || || || || |||||||| ||||| ||||| ||||| |||||||||||||| ||||||||||||||||| |||||| 
---------------------------------------------------------gtatgctacaccacaattgttcctgaacaatttaagcccctttcttttttgcattttaacagcttgtgtctattacagTTATGCATGGTGCACAAACTCGGATACGGAAACTGGGATGAACTGAAAGCAGCCTTTCGCATGTCGCCCTTGTTCCGATTTGATTGGTTTGTGAAGTCTA

upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 22
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                                          |||    | || | |    ||| || ||       | ||    ||| | |||   |    | |  ||  |     || ||        ||| |||| ||| | || || ||||| ||||| || |||||||| ||||| || || || || |||||||| ||||| |||||||||||||||||||||||  
-----------------------------------------gtatgctctatcataccatctcactttctgcacacatttg----ttttcaaacgtgacatgtctaattagttgtcacattt--------cagCTTTGCATGGTGCATAAGCTTGGTTATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGCATGTCGCCTTTGTTCCGATTTGATTGGTTTGTCAAGTCCA

upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                                          ||| | |||     ||||||        ||| || |   || |||   ||  | |   | || | |      ||  | ||| |  || ||| |||| ||| | ||||||||||| ||||| || |||||||| ||||| || || || || ||||| |||||||||||||||||||||||||| |||||  
-----------------------------------------gtatgtttttctcaccatgtta-------tgtgtatttatgtattt---gagtacatgacatg-gctactaagctggagttaca--ttccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA

upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 3'ss of exon 22
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccga-acagaattcttg--tgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                                          ||| ||||||  |   |   |  ||   ||||  ||||  |   ||     |   | || |||  ||||     ||||   |    |    ||||| || ||||||||||||||||| ||||| |||||||||||||| |||||||| ||| | |  ||| |  ||||  | ||||| |||||||| || || |
-----------------------------------------gtatgtctttttctcgtttccctttttgctgttctgtctcattaattatatcatgaagtttttgactgttgaggaactttggtggtgaaaaacagATCTGCATGATTCACAAACTTGGTTATGGGAATTGGGATGAGCTAAAGGCAGCATTTAGGACATCGTCTGTGTTCAGGTTTGACTGGTTTGTGAAATCCC

upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
gtgtgaaatttatttccttttgtttttatttttgcccaa-atttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                                 |    | || ||||| |     |   |||| || |  ||  ||  | | || || | | || |      |  | ||  |    |  ||||   | |  ||||| || ||| | || |||||||| ||||| || ||||||||||| |||||||| ||||| |  || ||||||||| | ||||| |||||||| || || |
---------------------------------gtatgacatctatttatcaaactctttgttgagat--ttcattgttattgttttattctaata------tgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC

upper sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                      ||   ||  |  | | | ||| |||  |     |  || |  |||  ||||||         | ||||||    |    |  ||  | |  ||||||         || |||| || ||| ||||||||||||| ||||| || |||||||||||||||||||| ||||| |  || ||||||||||| |||||||||||||| |||||||
---------------gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgttt-ttgtttgacgattgatcttccgagtgta---ttcatgcctccatacttca---------tgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC

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|31310252|gb|CD395455.1|CD395455
EST:     CAATGAAGAATGTGACCGATTCATG                         ATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGTTGAAGCCA
genomic: CAATGAAGAATGTGACCGATTCATGgtgtgaaatt ... aaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCA
EST: gi|7235136|gb|AW570395.1|AW570395
EST:     ATGGACAAAACAAAGGGAAGTTATACAATGAAGAATGTGACCGATTCATG                         ATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCA
genomic: ATGGACAAAACAAAGGGAAGTTATACAATGAAGAATGTGACCGATTCATGgtgtgaaatt ... aaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC
                              ttctgac  putative branch site (score: 2)
                                          ttaaaactt  TA-rich tract