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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcttgcaactggatattgatgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG

Basic information

species Glycine max
transcript GLYMA06G45160.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g57220.2 (Oryza sativa), 3'ss of exon 6
------------gtttgtcttgcaac-tggatat-tgatgcatcaatt-----ttgttaagtcatgcttaatttaccgacttgtctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG
            |  |  ||| | |  |   ||| | ||| ||||  |      ||    | ||     || | | |     ||         |||||   |  |||||||| || || |||||||| ||||| |||||||  || ||| |||||||||| ||||||||||| |||||   ||| |||||
gtatggctgactgagtaccttactatatatttatcttatggatcagctgccatctgcactgacacttcaaactaatcctgcggttcaattcaatagGTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAG

upper sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g42330.1 (Oryza sativa), 3'ss of exon 6
---------------gtttgtcttgcaactggatattga-tgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatg-tagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG
                     |   | ||    |||  | ||   ||    |||| |  ||  |  || | |  |   |    | |  ||  ||||   |  |||||||| |||||||||||||| || || |||||||  || ||  | |||||||| ||||| ||||||||||||  ||| |||||
gtaaagctaaagtgtacccaaccgtctacattgtatgaaatgtgccatgaatgttga--cactcaaaactaataggtgttctgtgctttgacagGTGTTATTATCTGGTTGCTTGCTATTATCTACTTCATATCTGGTGTACCTGGTGCTTATGTGTTATGGTACCGCCCTCTTTATAATGCAATGAG

upper sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G20840.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgtcttgcaactg--gatattgatgcatcaattttg--ttaagtcatgcttaatttaccgacttgt---ctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG
||  |||||| ||| |   | ||| |   |  |   |     |   | ||||| ||| | | ||||| |    |||   |||||||||||| || |||||||| |||||||||||||| || || || | ||| ||| | |||||  ||||||||||||||||||||||||| |||||
gtaagtcttggaacagttaaaatttaccaagtagactgaacctgtatgatgct-aatctgctgacttatgtattttggctgtagGTCCAACAATATGGTTTCTAGCTATTATCTATTTCATATCAGGGGTTCCTGGAGCGTATGTTATGTGGTATCGCCCTCTTTATCGTGCCATGAG

upper sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 3'ss of exon 6
------------gtttgtcttgcaactggatattgatgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG
             |||||    |  |   |  |||  | ||  ||| |       |||  ||   |     | ||| |||||| ||||||||| || || ||||||||||| || ||||| ||  | || || | ||||||| | ||||||||||||||||| |||||||||||||| |||||
gttagtttggaactttgttcacctcccaaaccttggggaat--attgtaaccttccataattgggtcttgaatttg-ctttccttgtagGTCCGACAATTTGGTTTCTTGCCATCATCTACTTCTTATCAGGGGTTCCAGGAGCTTATGTGTTGTGGTATCGTCCTCTTTATCGTGCCATGAG

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|162286177|gb|FC456625.1|FC456625
EST:     TCTTTTATGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
genomic: TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|31474417|gb|CD416445.1|CD416445
EST:     CTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATAATCTATTTTATTTCTGGTGCTCCAG
genomic: CTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|13181293|gb|BG352633.1|BG352633
EST:     TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAG                         GTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
genomic: TCTTTTGTGGAATATTGTGGCAGTTACTACTGCTTGGATCAAAGGAGAAGgtttgtcttg ... ttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAG
EST: gi|21887940|gb|BQ741153.1|BQ741153
EST:     GCAAAGGACGCAAAAGCAAAGGAGAAGGAACTTCAAGCTAAAGAGGCTGAATTGAAAAGAAGGGAACAG
genomic: GCAAAGGACGCAAAAGCAAAGGAGAAGGAACTTCAAGCTAAAGAGGCTGAATTGAAAAGAAGGGAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgcatcaattttgttaagtcatgcttaatttaccgacttgtctttccatgtagGTCCAACCATCTGGTTTCTTGCTATTATCTATTTTATTTCTGGTGCTCCAGGATCCTATGTGTTGTGGTATCGCCCTCTTTATCGTGCTATGAG
                                      cttgtctttcc  CT-rich tract
     atcaattttgttaa  TA-rich tract