Skip to another splice site:
1  
 5'  3'   
2  
 5'  3'   
3  
 5'  3'   
4  
 5'  3'   
5  
 5'  3'   
6  
 5'  3'   
7  
 5'  3'   
8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccataggttttgatgacctgttgaataactttcttctatcaatgccgcatcccctggtttcagtggtttgctgcatgttttccttagcttgtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTGAAGCTGCCATTGATGCCATCAATTACTCCAT

Basic information

species Glycine max
transcript GLYMA01G37790.1
intron # 7
splice site 3'
intron type U12 (go to U12 genes for details)

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|151403411|gb|EV273221.1|EV273221
EST:     TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
EST: gi|151412819|gb|EV282631.1|EV282631
EST:     TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
EST: gi|8402595|gb|BE058229.1|BE058229
EST:     TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
EST: gi|192330469|gb|FK021214.1|FK021214
EST:     TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
EST: gi|192330470|gb|FK021215.1|FK021215
EST:     TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
EST: gi|151412430|gb|EV282242.1|EV282242
EST:     TGAGCTTCCTCCACATCGGCTCGCTGAAATCAGAAGATTCTTTGAGGACT                         ACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG
genomic: TGAGCTTCCTCCACATCGGCTTGCTGAAATCAGAAGATTCTTTGAGGACTgtatcctgtt ... gtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcatcccctggtttcagtggtttgctgcatgttttccttagcttgtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTGAAGCTGCCATTGATGCCATCAATTACTCCAT
                                  ttccttagc  putative branch site 
 atgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccataggttttgatgacctgttgaataactttcttctatcaatgccgcatcccctggtttcagtggtttgctgcatgttttccttagcttgtcacactagACAAGAAGAATGAGAACAAAATAGTTGATGTTGAAGACTTTCTACCGGCTGAAGCTGCCATTGATGCCATCAATTACTCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - tgatgac
- - - - - - - - -ctgttga
- - - - - - - - - - - - - - - - - - - -caatgcc
- - - - - - - - - - - - - - - - - - - - - - - -catcccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctgc