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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacgtggaggatatatatatataagaacctgttgatgcatattgtcgtgcatttttatgattggatctcttaaataaattgatatgttttatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATTTGTGCAATTATTGGAG

Basic information

species Glycine max
transcript GLYMA05G24610.1
intron # 11
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|12772634|gb|BG237488.1|BG237488
EST:     GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAG                         GTCAACTTTAAAGAGGAACATACTCCATTTTTACATTTCCTGACCAATATT
genomic: GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAGgtaaaattgc ... tatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATT
EST: gi|22929560|gb|BU546699.1|BU546699
EST:     GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAG                         GTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATT
genomic: GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAGgtaaaattgc ... tatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATT
EST: gi|7233507|gb|AW568852.1|AW568852
EST:     GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAG                         GTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATT
genomic: GTGTTGCAGTTCCTGGAGTTTTCTTCTTTTATGACATATCTCCAATCAAGgtaaaattgc ... tatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtgcatttttatgattggatctcttaaataaattgatatgttttatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATTTGTGCAATTATTGGAG
                                aattgat  putative branch site (score: 4)
                    atctcttaaataaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacgtggaggatatatatatataagaacctgttgatgcatattgtcgtgcatttttatgattggatctcttaaataaattgatatgttttatgctgcagGTCAACTTTAAAGAGGAACATATTCCATTTTTACATTTCCTGACCAATATTTGTGCAATTATTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - -tggagga
- - - - - - - - - - - - - - cctgttg
- - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg