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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgtttgtctgtttgatcttgtgttttagcactgaactagctcataaattatttatattatacactataccgtcatttgattttcactaatgttttaattatcag

Basic information

species Glycine max
transcript GLYMA01G07070.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G07070.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0011g00620.t01 (Vitis vinifera), 5'ss of exon 3
GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgtttgtct-gtttgatcttgtgtttta-gcactgaactagctcataaattatttatattatacactataccg-tcatttgattttcactaatgtt-ttaattatcag
   |||||| || |  |||||||| |||||||||||||||||||| ||||||||||||||  |||| ||||||||||| || ||||||| | ||     ||| ||   ||||  |     |  ||  ||   |        ||| | | ||  ||   |||   || ||| ||||| | | ||    ||  || || | ||
---AGGTGACTACTACCGGTATCTGGCTGAGTTCAAGACTGACCAGGAAAGGAAAGAGGCCTCTGAGCAGTCACTGAAGGGCTACGAGGCATGTTCACTTCTTgtgacatctcttaacaaacacatagagtcaatgttcgtatt-tatgtaacattttctaattcgatcacttgatataccctttctttgctatttgttag
















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|192300602|gb|FG988899.1|FG988899
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|12773324|gb|BG238251.1|BG238251
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|7590427|gb|AW706180.1|AW706180
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|37996365|gb|CF807954.1|CF807954
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58019744|gb|CX706486.1|CX706486
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58019157|gb|CX705899.1|CX705899
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58015355|gb|CX702097.1|CX702097
EST:     GGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: GGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58019309|gb|CX706051.1|CX706051
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58022129|gb|CX708870.1|CX708870
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|192302132|gb|FG995812.1|FG995812
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|18735497|gb|BM528797.1|BM528797
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
EST: gi|58018950|gb|CX705692.1|CX705692
EST:     CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAG                         GCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT
genomic: CTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgttt ... taattatcagGCTGCTTCAGCCACTGCAAACACAGATCTTCCATCAACACATCCAATCCGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAGGTGATTATTTTCGGTATCTTGCTGAGTTCAAGACTGACCAAGAAAGGAAAGAGGCAGCTGAACAGTCACTGAAAGGATACGAGgtacgtgtttgtctgtttgatcttgtgttttagcactgaactagctcataaattatttatattatacactataccgtcatttgattttcactaatgttttaattatcag

- - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA