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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatcaagcaccagtgttcaattaaagtgacttatgttgcatcatattgactagtgactaccctattttgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTCCCCCAGAAGCAACTTCTGATGATCTTCGTCAATATTTTGGAAGATTTGG

Basic information

species Glycine max
transcript GLYMA01G39330.1
intron # 10
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|58020024|gb|CX706766.1|CX706766
EST:     AGCACTTGGTGCTCNTACTTNGTATGACCAACCTGGCCCAATTTATGGAA                         GAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
genomic: AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAAgtaagcatca ... tgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
EST: gi|58023593|gb|CX710334.1|CX710334
EST:     AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAA                         GAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
genomic: AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAAgtaagcatca ... tgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
EST: gi|254318602|gb|GR832770.1|GR832770
EST:     AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAA                         GAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
genomic: AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAAgtaagcatca ... tgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
EST: gi|58024913|gb|CX711654.1|CX711654
EST:     AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAA                         GAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
genomic: AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAAgtaagcatca ... tgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
EST: gi|58020404|gb|CX707146.1|CX707146
EST:     AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAA                         GAG-A--CCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC
genomic: AGCACTTGGTGCTCCTACTTTGTATGACCAACCTGGCCCAATTTATGGAAgtaagcatca ... tgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtgacttatgttgcatcatattgactagtgactaccctattttgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTCCCCCAGAAGCAACTTCTGATGATCTTCGTCAATATTTTGGAAGATTTGG
                     tattgac  putative branch site (score: 2)
                                     ccctatttt  putative PPT
                                        tattttgtgaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcatcaagcaccagtgttcaattaaagtgacttatgttgcatcatattgactagtgactaccctattttgtgaattagGAGGAGACCCTTCTCGGAGAACTAGTAAGAAAATTTTTGTTGGCCGTCTTCCCCCAGAAGCAACTTCTGATGATCTTCGTCAATATTTTGGAAGATTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA