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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaatgacttcaaatgctctattaatatgtctcatcctttcggagtataagcaaaagcaatctcatgttctgatgttagcgaaattttgtattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATTGATGAACTCAAAGAGGCTTTGGCTGATGTGGATCACAAACCCGAAATCA

Basic information

species Glycine max
transcript GLYMA16G10880.3
intron # 3
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|120491370|gb|EH219537.1|EH219537
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|13562679|gb|BG550899.1|BG550899
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|22524450|gb|BU083261.1|BU083261
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|20812913|gb|BQ297391.1|BQ297391
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAATCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|7028945|gb|AW458728.1|AW458728
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|209728984|gb|BW651747.1|BW651747
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|120495789|gb|EH223956.1|EH223956
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|12689187|gb|BG155523.1|BG155523
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|120529139|gb|EH257273.1|EH257273
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|120531755|gb|EH259888.1|EH259888
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|19270067|gb|BM886323.1|BM886323
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|6914782|gb|AW396312.1|AW396312
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|6134837|gb|AW133230.1|AW133230
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT
EST: gi|20813349|gb|BQ297827.1|BQ297827
EST:     AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG                         ATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAATCTTTAATT
genomic: AAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAGgtactaataa ... tattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtataagcaaaagcaatctcatgttctgatgttagcgaaattttgtattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATTGATGAACTCAAAGAGGCTTTGGCTGATGTGGATCACAAACCCGAAATCA
                       ttctgat  putative branch site (score: 3)
                                     aaattttgtattttac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaaatgacttcaaatgctctattaatatgtctcatcctttcggagtataagcaaaagcaatctcatgttctgatgttagcgaaattttgtattttacagATTAAAACATTTAAGCCTGAAGTTGTTGGTCTTAGAAATGAGTCTTTAATTGATGAACTCAAAGAGGCTTTGGCTGATGTGGATCACAAACCCGAAATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - gacttca
- - - - - - -aatgctc
- - - - - - - - - - - - - - - -ctcatcc
- - - - - - - - - - - - - - - - - - - - - - - - -aagcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgtt