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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTCTTGGTGCTGGTCCTGTGCCTGCCCTTCTTCTACCGGAGATATTTGCTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgacttcactgtggaacctaatattttacctgtggttgaggcctttatcttgccatatatttgaaattatacttcttaaaagctaaaaaaattaa...

Basic information

species Glycine max
transcript GLYMA13G07780.2
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G07780.2 (Glycine max), 5'ss of exon 13
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 13
CTCTCTTGGTGCTGGTCCTGTGCCTGCCCTTCTTCTACCGGAGATATTTGCTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgacttcactgtggaacctaatattttacctgtggttgaggcctttatcttgccatatatttgaaatt---atacttcttaaaagctaaaaaaattaa---
||||||||||||||||||||| ||||| |||||||| || || |||||||| |||||||| || |||||||||||| |||| ||||||||||  |||||||| |||||       |  |||   |   | ||||   || ||     |||      |    |  ||  ||  |    || | | |  |   |        |     
CTCTCTTGGTGCTGGTCCTGTCCCTGCTCTTCTTCTTCCAGAAATATTTGCCTCTAGAATCAGGGCAAAAGCAGTTGCTTTATCATTAGGCATGCATTGGgtaagtgaa------gaagaaatgatcctgttactactgatttttttcttatcaaagatgcactttgaaagattcagtattgcctgtagtttttgctttctctctg
















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|209725015|gb|BW663005.1|BW663005
EST:     AGCAGTTTCTTTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: AGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
EST: gi|208135856|gb|GD936701.1|GD936701
EST:     CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
EST: gi|51335113|gb|CO978979.1|CO978979
EST:     CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
EST: gi|15664634|gb|BI702005.1|BI702005
EST:     CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
EST: gi|22930424|gb|BU547563.1|BU547563
EST:     CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: CTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
EST: gi|214010108|gb|DB989480.1|DB989480
EST:     TTGTCATTAGGCACACATTGG                         ATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT
genomic: TTGTCATTAGGCACACATTGGgtgagtgact ... gtgttatcagATCTCCAACTTCGTCATCGGCCTCTACTTCTTGAGTGTTGTAAACAAGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCTCTTGGTGCTGGTCCTGTGCCTGCCCTTCTTCTACCGGAGATATTTGCTTCTAGAATTAGAGCAAAAGCAGTTTCTTTGTCATTAGGCACACATTGGgtgagtgacttcactgtggaacctaatattttacctgtggttgaggcctttatcttgccatatatttgaaattatacttcttaaaagctaaaaaaattaa

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