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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTACTCCAAATGCCAAAATAGTGCTGAAATTATATCTGTTCAAAATGCTTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattgttgtgaatataatttttttttttatgcaatggtggccataactaagtaatcttcaagagaaggtaagcctttgtgcgacagtaatcatgc...

Basic information

species Glycine max
transcript GLYMA08G14780.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14780.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv07s0031g01200.t01 (Vitis vinifera), 5'ss of exon 9
GCCTACTCCAAATGCCAAAATAGTGCTGAAATTATATCTGTTCAAAATGCTTGGCTGTCACAAGAGAGTC---AGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcatt----gttgtgaatataatttttttttttatgcaatggtggccataactaagtaatcttcaagagaaggtaagcctttgtgcgacagtaatcatgc--
   ||||| |||||| ||||  | |||||||||||||| ||||||||||||||||| || ||| | || |   || | |  | ||| |   | ||   ||||||||    ||    ||||| || | ||| | | |||      |     || || ||||  |  |  ||            |    ||       | |   | |    
---TACTCTAAATGCGAAAACGGAGCTGAAATTATATCAGTTCAAAATGCTTGGCTTTCCCAACAAAGGCTACAGGTCCAGAAGGCACTCCCAGATGATGAAGgtacaagttctgagttgtcaagaaaatgtctcttt------atcataggacacaacttggccactttgtgagccccaccatttattacttacaaattggctttttg
















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|192331293|gb|FK021004.1|FK021004
EST:     TCGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|192331294|gb|FK021005.1|FK021005
EST:     TCGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|57574219|gb|CX547194.1|CX547194
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|192320790|gb|FK013880.1|FK013880
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|58022603|gb|CX709344.1|CX709344
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|192327944|gb|FK022475.1|FK022475
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACCCCTGAAAGTGAGGATAAAATCCAGAATTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|58018279|gb|CX705021.1|CX705021
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
EST: gi|192331185|gb|FK020952.1|FK020952
EST:     TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAG                         TTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG
genomic: TTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattg ... gcatggacagTTACGACACCTGAAAGTGAGGATAAAATCCAGAACTCTTCCGATTCTGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCTACTCCAAATGCCAAAATAGTGCTGAAATTATATCTGTTCAAAATGCTTGGCTGTCACAAGAGAGTCAGATTCCAAGGGCTCCTACTGACAGTGAAGgtatgcattgttgtgaatataatttttttttttatgcaatggtggccataactaagtaatcttcaagagaaggtaagcctttgtgcgacagtaatcatgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA