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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactcttcattccgattctacaaatttctccaaatttcgaagcttcctcatttcaattttttttttgttctttttttattgtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTGGTGCTTGTTTGCGGTCACATTGCGGTTCAGTTTATCCCTTCAGCTGTTA

Basic information

species Glycine max
transcript GLYMA02G07160.2
intron # 1
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|7796895|gb|AW782289.1|AW782289
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|16105843|gb|BI893583.1|BI893583
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|7925767|gb|AW831793.1|AW831793
EST:     TTCAGATTCNGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGA
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGA
EST: gi|22523529|gb|BU082340.1|BU082340
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|192312614|gb|FK004302.1|FK004302
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|7284243|gb|AW596839.1|AW596839
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|15204143|gb|BI426911.1|BI426911
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
EST: gi|192312613|gb|FK004301.1|FK004301
EST:     TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGG                         GGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG
genomic: TTCAGATTCGGATCACCGCCGAGTCCATGAGCACGCCAGCGCTTTCAGGGgtaactcttc ... gtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgaagcttcctcatttcaattttttttttgttctttttttattgtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTGGTGCTTGTTTGCGGTCACATTGCGGTTCAGTTTATCCCTTCAGCTGTTA
                     ttttttttttgttctt  CT-rich tract
            tcatttcaattttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactcttcattccgattctacaaatttctccaaatttcgaagcttcctcatttcaattttttttttgttctttttttattgtggtggcagGGCACGGGCCTCTTCTCTGGATTCACGCGTTTATGCAAGGGCCTTGCGGTGGTGCTTGTTTGCGGTCACATTGCGGTTCAGTTTATCCCTTCAGCTGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT