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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtcaaactatgtctgtttgtgacttgctgtaggttgtcttttgatgtgtctctatccttaattaggttacatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA

Basic information

species Glycine max
transcript GLYMA16G08460.1
intron # 14
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:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|193594512|gb|FK548989.1|FK548989
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|19348065|gb|BM892597.1|BM892597
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|19453158|gb|BM954568.1|BM954568
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|15203110|gb|BI425878.1|BI425878
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|6566798|gb|AW234430.1|AW234430
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|298199413|gb|HO042776.1|HO042776
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|17401843|gb|BM178625.1|BM178625
EST:     GCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: GCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|19453207|gb|BM954617.1|BM954617
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|16346357|gb|BI971952.1|BI971952
EST:     GTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: GTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|7326720|gb|AW620518.1|AW620518
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
EST: gi|6964515|gb|AW433208.1|AW433208
EST:     CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAG                         GTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT
genomic: CTTGGGCTCATGAGCATGAGCCTGTTGGCAGTCTCCTAGAAGCTGTTAAGgtgtcaaact ... acatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctgtaggttgtcttttgatgtgtctctatccttaattaggttacatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA
                                ccttaat  putative branch site (score: 4)
                                              catcttc  putative PPT
                                  ttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtcaaactatgtctgtttgtgacttgctgtaggttgtcttttgatgtgtctctatccttaattaggttacatcttcagGTAATCAAGCCTACAGTTTTGATTGGATCATCAGGAGTGGGAAAAACATTTACAAAGGAAGTAATTGAGGCTGTGACTTCTATCAATGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA