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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAATTGTCAGTAGAAGACAGCTCAAAGGACTCGGCAAGCCAGTCTGACGTGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctataaatccagtaaattttccatgttctttaaatgtattaatagaatgattgacaatatgttcttaactgaataatattcattgcttctgcag

Basic information

species Glycine max
transcript GLYMA02G05250.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G05250.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv04s0023g03620.t01 (Vitis vinifera), 5'ss of exon 8
CCAATTGTCAGTAGAAGACAGCTCAAAGGACTCGGCAAGCCAGTCTGACGTGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctataaatccagtaaattttccatgttctttaaatgtattaatagaatgattg-aca-atatgttcttaactgaataatattcattgcttctgcag---------------------------------------------------------
 ||||| || ||  | ||||    ||| || ||  | || ||| | ||| |||||||| ||||| |||||||| | ||||| || |||||||||||||| ||||||   | || ||  | | |||||||     |  ||| | |  |  || |       ||| | |    |  |    |   | |     ||                                                                  
TCAATTATCTGTGCAGGACACTGGAAAAGATTCAACCAGTCAGACCGACATGAGTAAATTGTTGACAGATCAGACTTTTGTGTCCTCTATCCTTGCATCTgtatgtgactgaaccc--tcacttttccaaaaagtaaaaaggaaaaacaagcacaggcacacacacacacacacacacaagagagaggagatggaaaaatgacagatgaggatctgctgcagttagcatttcatgaaaagcattttcgattttgtgcag
















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|207736317|gb|GD710796.1|GD710796
EST:     TATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGATCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|254335038|gb|GR844823.1|GR844823
EST:     TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAA-TGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|207802077|gb|GD774273.1|GD774273
EST:     AGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: AGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|213602974|gb|DB974139.1|DB974139
EST:     TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|254335039|gb|GR844824.1|GR844824
EST:     TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|308099085|gb|HO760926.1|HO760926
EST:     TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
EST: gi|31470062|gb|CD412090.1|CD412090
EST:     TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCG                         CTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC
genomic: TGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctat ... gcttctgcagCTTCCTGGGGTTGACCCAAATGACCCATCTGTCAAAGATTTGCTGGCTTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAATTGTCAGTAGAAGACAGCTCAAAGGACTCGGCAAGCCAGTCTGACGTGAGTAAACTGTTGGCAGATCAGTCCTTTGTATCTTCTATCCTTGCATCGgtatgtctataaatccagtaaattttccatgttctttaaatgtattaatagaatgattgacaatatgttcttaactgaataatattcattgcttctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA