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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttaccttcatgaacacctctactatttagttagttatacaaaaatagcatcatatatcttaagtcttgcttcaatgccttgtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCAGGAGCAATCAGAGTGCATGACGATATGCTTCTAGCAGCTT

Basic information

species Glycine max
transcript GLYMA16G08460.1
intron # 17
splice site 3'
intron type U2

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|254320400|gb|GR826849.1|GR826849
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|13790083|gb|BG652674.1|BG652674
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|308222728|gb|HO760638.1|HO760638
EST:     ACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: ACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|15203110|gb|BI425878.1|BI425878
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|8284659|gb|BE022281.1|BE022281
EST:     ATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: ATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|6725412|gb|AW309811.1|AW309811
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|6724914|gb|AW309313.1|AW309313
EST:     TACAGGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCGCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: TACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|6566798|gb|AW234430.1|AW234430
EST:     GTCCATTTGATCCTGTAGAATACAAAGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCNCCCG-CTNTGGTCTTGGGTTG
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTC-CCCGGCTTTGGTCTTGGGTTG
EST: gi|7458625|gb|AW666075.1|AW666075
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|6566927|gb|AW234559.1|AW234559
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|19935486|gb|BQ080461.1|BQ080461
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|298199413|gb|HO042776.1|HO042776
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|19935230|gb|BQ080260.1|BQ080260
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|17401843|gb|BM178625.1|BM178625
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|197664691|gb|FD480364.1|FD480364
EST:     GTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|19453207|gb|BM954617.1|BM954617
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|298174577|gb|HO017800.1|HO017800
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|16346357|gb|BI971952.1|BI971952
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|7326720|gb|AW620518.1|AW620518
EST:     GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAN                         GCCAACAATGCATACATCTT
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTT
EST: gi|6964515|gb|AW433208.1|AW433208
EST:     GTCCATTTGATCCTGTANAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTATGGTCTTGGGTTGGTAATCTCA
genomic: GTCCATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
EST: gi|19937006|gb|BQ081106.1|BQ081106
EST:     ATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAG                         GCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA
genomic: ATTTGATCCTGTAGAATACAAGGGCAAAGTGTACTATTCTGGCCAGgttttacctt ... gtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacaaaaatagcatcatatatcttaagtcttgcttcaatgccttgtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCAGGAGCAATCAGAGTGCATGACGATATGCTTCTAGCAGCTT
                                         ccttgtcc  CT-rich tract
             atcatatatcttaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttaccttcatgaacacctctactatttagttagttatacaaaaatagcatcatatatcttaagtcttgcttcaatgccttgtccattcagGCCAACAATGCATACATCTTCCCCGGCTTTGGTCTTGGGTTGGTAATCTCAGGAGCAATCAGAGTGCATGACGATATGCTTCTAGCAGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT