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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgctcctattctctctaccatagccaatgatattgcttacctccaagtattgtaattccataatttttagaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAGGAGCAATTTTTGGACTA

Basic information

species Glycine max
transcript GLYMA08G19760.1
intron # 5
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|151406516|gb|EV276331.1|EV276331
EST:     CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAA                         GTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAG-TGCA
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCA
EST: gi|22525712|gb|BU084523.1|BU084523
EST:     CAGTGGCCCTCCGAGATTTCTTGCAGGTTACTTTATCTCTGCAATTGCAA                         A
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcag-
EST: gi|22525712|gb|BU084523.1|BU084523
EST:     CAGTGGCCCTCCGAGATTTCTTGCAGGTTACTTTATCTCTGCAATTGCAA                         A
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcag-
EST: gi|9900560|gb|BE609528.1|BE609528
EST:     CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAA                         GTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
EST: gi|58020307|gb|CX707049.1|CX707049
EST:     CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAA                         GTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
EST: gi|58016763|gb|CX703505.1|CX703505
EST:     CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAA                         GTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG
EST: gi|22524413|gb|BU083224.1|BU083224
EST:     CACTGGCCCTCAGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAA                         GTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTATGTGCATCAT
genomic: CAGTGGCCCTCGGAGATTTCTTGCAGTTTACTTTATCTCTGCAATTGCAAgtaactgctc ... agaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaatgatattgcttacctccaagtattgtaattccataatttttagaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAGGAGCAATTTTTGGACTA
          tgcttac  putative branch site (score: 2)
 tattgtaattccataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactgctcctattctctctaccatagccaatgatattgcttacctccaagtattgtaattccataatttttagaaaatcagGTTCTGCTACGAGTTATTGGTTCTGCAGAATGCCTGCTGTAGGTGCATCAGGAGCAATTTTTGGACTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA