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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT

Basic information

species Glycine max
transcript GLYMA17G00470.4
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00470.4 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01130.t01 (Vitis vinifera), 3'ss of exon 7
gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
                                                                   |||   ||||   |||| |   | |||    ||  |  |   ||  | | || ||     | | | ||   ||    || ||    |||||    |  | ||  ||||||||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||||||||| ||||||||||| || || || || ||  ||||||||||
----------------------------------------------------------------gcctagttgataa--gttgcta---tggttgctctgttttctacttctcattcttcaagg---tttaaaactttga----agttcacaatgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGACGAGAATACCGTCTCATTCGTAACTCTGAACAAGGT

upper sequence: GLYMA17G00470.4 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
                                                                   |||   ||||   |||| |   | | | || | | |  | |||||   || |  ||   |||  ||      |||| | |      |||||    |  | ||  ||||||||| ||||||||||| |||||||||||||||||||| ||||| ||||||||||||||||| | ||||||||| || || || || ||  ||| ||||||
----------------------------------------------------------------gcctagttgataa--gttgctatggttgctctgtttactact-tctca---ttcttcaaggtttaaaac-tttgaagttcacaa-----tgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT

upper sequence: GLYMA17G00470.4 (Glycine max), 3'ss of exon 6
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatctt-gcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
                                                                                                                     |  ||    |  |  ||   |  | |   |  |  |    |  |      ||||| |||||||| ||||| |||||||| |||||||||||||| || ||||| || || ||||| |||||||| ||||| || ||  |||| |||||  ||||||||||
--------------------------------------------------------------------------------------------------------------------gtacaagtggtgtttccattgatcgcttgaaaatgctgattttgatcccaaatctttgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

upper sequence: GLYMA17G00470.4 (Glycine max), 3'ss of exon 6
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
gtattgtttttgtgtcccccctgtgggttcattgttttaaatgtttcctaaattaggattgtgattatagcctataatcattgcaaaattagttatgatgaatcttctctcagaattttaaaaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
                                                                                                                     |  ||    |  |  ||   |  | |   |  |  |       |  | ||  ||||||||||| |||||||||||||| |||||||||||||| || ||||| || || ||||| |||||||| ||||| || ||  |||| |||||  ||||||||||
--------------------------------------------------------------------------------------------------------------------gtacaagtggtgtttccattgatcgcttgaaaatgctgattctgatctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

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|26048878|gb|CA785331.1|CA785331
EST:     AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAG                         GATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
genomic: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAGgtattgtttt ... tatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
EST: gi|22524995|gb|BU083806.1|BU083806
EST:     AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAG                         GATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
genomic: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAGgtattgtttt ... tatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
EST: gi|23729351|gb|BU762759.1|BU762759
EST:     CCAACTTCAGGGAGGTTGCTATCAAAG                         GATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
genomic: CCAACTTCAGGGAGGTTGCTATCAAAGgtattgtttt ... tatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaattatgacacccagagttgagatctttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAACGACGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
                                    tccactttttatctt  CT-rich tract
                                         tttttatctt  TA-rich tract