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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGCTGTCTTAGATATGCTTCGTTATATGCGTTTGGGCTATGTTTCAGATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgtttcatccagtgccttcattatttgaatttgaagaattataagactgctgtggtcacatccagcatctgtactggatacaagtaaaataag...

Basic information

species Glycine max
transcript GLYMA19G22520.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22520.2 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0171g00310.t01 (Vitis vinifera), 5'ss of exon 9
GGAAGCTGTCTTAGATATGCTTCGTTATATGCGTTTGGGCTATGTTTCAGATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgtttcatccagtgccttcattatttgaatttgaag---aattataagactgctgtggtcacatccagcatctgtactggatacaagtaaaataag
 |||||||| | ||| ||||| | |||| |||| |||||||||||||||||||| ||||||||| | ||||| ||||| |||||||||||| | |||||||||||||  | | |  |    | || |   |  |||||||| |   |   || ||       |  |   |    |||| |  | |  | |||  || | ||  
AGAAGCTGTTTCAGACATGCTCCCTTATCTGCGATTGGGCTATGTTTCAGATCCATCTGAGATGCAGTCTGTTATCTCTTCTCAAGGTCCAATATGTCCTgtaagttcatcttaaacttcacatttaagttaagaatttgatgttcagcaattaggagtagataatagtaatatgcatataca-tccacacacttaga-tac-
















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|193629052|gb|FK573786.1|FK573786
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAG-TTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|7639784|gb|AW734099.1|AW734099
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|10844807|gb|BF068009.1|BF068009
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|197661912|gb|FD480321.1|FD480321
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|21994328|gb|BQ785856.1|BQ785856
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|207799528|gb|GD770039.1|GD770039
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTAT
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTAT
EST: gi|193555428|gb|FK514305.1|FK514305
EST:     ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|208115093|gb|GD910408.1|GD910408
EST:     ATCCTTCTGAGATGCAGTCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCATTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
EST: gi|5666751|gb|AI930787.1|AI930787
EST:     ATTCTTCTGAGATGGAATCTGTCATCTGCTCTCAAGGTCCAGTTTGTCCT                         GTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC
genomic: ATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgt ... tacattatagGTAAGCCCTTGTATGGAACGGGCTGCGTTGGATCAGTTGGCTGATTATTTC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGCTGTCTTAGATATGCTTCGTTATATGCGTTTGGGCTATGTTTCAGATCCTTCTGAGATGGAATCTGTCATCTCCTCTCAAGGTCCAGTTTGTCCTgtaagtttgtttcatccagtgccttcattatttgaatttgaagaattataagactgctgtggtcacatccagcatctgtactggatacaagtaaaataag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC