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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTTAACAGTGACACAGATGGAGTTCTCACATGACGACAACTTTCTTTTGACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgtcatcattgtttaggcatttgaatttgcacctttccattattattattatttgacaattttccttggttgacacctgacattgtttgagat...

Basic information

species Glycine max
transcript GLYMA10G41620.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41620.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv01s0011g04130.t01 (Vitis vinifera), 5'ss of exon 9
AGCTTAACAGTGACACAGATGGAGTTCTCACATGACGACAACTTTCTTTTGACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtata-tatgtcatcattgtttaggcatttgaatttgcacctttccattattattattatttgacaattttccttggttgacacctgacattgtttgagat--
|||||||||||||||||||| || || || ||||| |||||  | |||||| ||||||| |||||||||||||| ||||| ||| | || | ||||||||||||  ||     ||| | |||     |   ||||| ||   |    | |||| | || |   |    ||   |  ||| |||  |    |  |      |  
AGCTTAACAGTGACACAGATTGAATTTTCTCATGATGACAATCTGCTTTTGTCTGTCTCCAGGGATCGCCAGTTTTCTGTTTTTGCAATAAAAAGAACAGgtatgctaaactctcactatttcc-tgtaataatttccattatgatgtaattactgttctccaattgattggtt--gttcacatgtagtgtaatgaacagttt
















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|51343914|gb|CO984647.1|CO984647
EST:     GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|58015737|gb|CX702479.1|CX702479
EST:     TCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: TCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|208284813|gb|GE085627.1|GE085627
EST:     CTTGTTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: C-TG-TCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|208188298|gb|GD982772.1|GD982772
EST:     GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|58015522|gb|CX702264.1|CX702264
EST:     TCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: TCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|207789177|gb|GD762205.1|GD762205
EST:     GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGGCACAAG
genomic: GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGG-CACAAG
EST: gi|208310406|gb|GE105570.1|GE105570
EST:     GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: GACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
EST: gi|19269252|gb|BM885508.1|BM885508
EST:     CACAAGAACAG                         GCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC
genomic: CACAAGAACAGgtatatatgt ... tggtttacagGCACCGGTGAAATTAGTTGTAGTCTTCTTGCGAGACAGGAGGGGCACAAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTTAACAGTGACACAGATGGAGTTCTCACATGACGACAACTTTCTTTTGACTGTCTCAAGGGATCGCCAGTTCTCTGTCTTTTCTATCACAAGAACAGgtatatatgtcatcattgtttaggcatttgaatttgcacctttccattattattattatttgacaattttccttggttgacacctgacattgtttgagat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctttcc