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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtacaccatataatacccaagttacttaaatttattttctagttgtggatttgatattcttttatgtaatctaattttgtttgtgtctttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG

Basic information

species Glycine max
transcript GLYMA02G13780.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G13780.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os08g07960.2 (Oryza sativa), 3'ss of exon 8
gtagtacaccatataatacccaagttacttaaatttattttct---agttgtggatttgatattcttttatgtaatctaattttgtttgtgtctttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG
    |  |  | |  ||  || | |||||    |||    |||   | |  | | ||    | |  | | |    | | || || | | |  | | |||  ||||| |||||||| ||||||||||||||||| ||||| || |||||||||||||||||||| || ||||| ||||| |||
--cattgagaaaagcattgccgacttactggtttttgaagtctggaaatcatagtttgcggagttatatttaaggtttcatattttctatcacgtggca--cagGTTCATCACACGTTTGCAACTGCTGGATCAGATGGCGCATTTAATTTCTGGGATAAGGATAGCAAACAAAGACTGAAG

upper sequence: GLYMA02G13780.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G058498_T01 (Zea mays), 3'ss of exon 8
gtagtacaccatataatacccaa-gttacttaaatttattttctagttgtggatttgatattct---tttatgtaatctaattttgtttgtgtctttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG
     |        |||| |    | | || |  ||    | ||||| ||  || |   | |      ||   ||||  |  | ||||       |||| | ||||| |||||||| |||||||||||||||||||| |||||||| || |||||||||||||| || || ||||| || |||
----catgtttgggaatagcagttggttctaagcttggcatcctagtggttaatgttgaacttgggaatttcataattcatatatgttccataacttgc-tgcagGTCCATCACACATTTGCAACTGCTGGATCTGACGGTGCTTTCAACTTCTGGGATAAGGATAGCAAGCAGAGGCTAAAG

upper sequence: GLYMA02G13780.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G80670.1 (Arabidopsis thaliana), 3'ss of exon 8
gtagtacaccatataatacccaagttacttaaatttattttctagttgtggatttgatattcttttatgtaatctaatt--ttgtttgtgtctttgca---ttcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG
|||   | | || ||       | |    ||    ||| |  |  |||  |  || |   | | ||  |  ||  || |  ||||||| ||  |||     || ||||||||  |||||||||||||||||| || ||||||||||| ||||||||||| || || |||||||| |||||||||
gtaa-gctctatctatagttatactcttatactcgtatgtattctttgaagccttcagcatatgttgagcgatgaaaatgattgtttgagttgttgtggatttaagGTACATGGCACTTTTGCAACTGCTGGGTCAGATGGTGCTTTCAATTTCTGGGACAAAGATAGTAAACAAAGACTCAAG

upper sequence: GLYMA02G13780.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ25923 (Selaginella moellendorffii), 3'ss of exon 7
gtagtacaccatataatacccaagttacttaaatttattttctagttgtggatttgatattcttttatgtaatctaattttgtttgtgtctttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG
                                               |||  |   || |  |  | || |      | ||   || | ||||     |||||   |   || || || ||  | || ||||||||||||||||| |||||||| |||||||| || ||||| ||||||
-----------------------------------------------gtgagtc-aatctcttcctttgaagct--gtgttaactg-gcctttatgcgcagGTGTTTGGAACATTCGCTACATCAGGCTCTGATGGTGCTTTTAACTTCTGGGACAAGGACAGCAAGCAGAGGCTCAAG

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|6915623|gb|AW397153.1|AW397153
EST:     ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCG                         GTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
genomic: ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCGgtagtacacc ... ttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
EST: gi|58015700|gb|CX702442.1|CX702442
EST:     ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCG                         GTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
genomic: ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCGgtagtacacc ... ttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
EST: gi|42722614|gb|CK768513.1|CK768513
EST:     ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCG                         GTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
genomic: ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCGgtagtacacc ... ttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
EST: gi|58015403|gb|CX702145.1|CX702145
EST:     ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCG                         GTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG
genomic: ACAGAGAGAACAATGAGATATATTCAGTCAACTCCTTAAATTTCCATCCGgtagtacacc ... ttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggatttgatattcttttatgtaatctaattttgtttgtgtctttgcattcagGTACATCACACTTTTGCAACTGCTGGATCTGATGGTGCTTTTAATTTCTGGGATAAGGACAGTAAACAGAGACTCAAG
                         atctaat  putative branch site (score: 3)
                                        tgtcttt  putative PPT
     atttgatattctttta  TA-rich tract