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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaaacaacttttggagtaactcaatccctcctccaaccaaaatacagtatgtataaactaacttttgtgttgtgttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAATGCAAGATGGGAAGTCTTCAGATCATTCTGCTGCGATTAAGGATCTGGT

Basic information

species Glycine max
transcript GLYMA09G02160.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G02160.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 3'ss of exon 1
------gtatgtaaacaacttttggagtaactcaatccctcctccaaccaaaatacagtatgtataaactaa------cttttgtgttgtgttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAATGCAAGATGGGAAGTCTTCAGATCATTCTGCTGCGATTAAGGATCTGGT---
       | |     |   ||||        |  ||    | ||||    |   |   | | ||   ||         | ||| | |  | |  ||||||| || ||  | || |||||||| |||||||| |||||||| |||||||| ||| | |||||||||||   ||| |       |     ||| ||||||||   
tttctctttttccttcctattttcttcccctttcattttccttccatttcactcatcttgtctactcacctttgtgttcctttctttcttatatttgcagCTGGAAAACTCCCAAAGCATAATAATGTTTCCTGGAGGGGTAACTCGGGTATGAATGATGGGAAGTCGG-AGACCGGGAGTTTTTA--TAAAGATCTGGTGGG
















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|19269386|gb|BM885642.1|BM885642
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209716402|gb|BW657497.1|BW657497
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213587767|gb|DB955629.1|DB955629
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213613887|gb|DB960908.1|DB960908
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213617927|gb|DB957380.1|DB957380
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCC
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCC
EST: gi|209722986|gb|BW668830.1|BW668830
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209715757|gb|BW677251.1|BW677251
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213600725|gb|DB956201.1|DB956201
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209729805|gb|BW658610.1|BW658610
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213610911|gb|DB963213.1|DB963213
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213603305|gb|DB966592.1|DB966592
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213613863|gb|DB960898.1|DB960898
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209704427|gb|BW678397.1|BW678397
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGGAAACTCGGGA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGG-AAACTCGGGA
EST: gi|6666649|gb|AW278108.1|AW278108
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209723229|gb|BW675175.1|BW675175
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213616470|gb|DB965531.1|DB965531
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|37994918|gb|CF806507.1|CF806507
EST:     CTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
genomic: CTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213600483|gb|DB966192.1|DB966192
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213590357|gb|DB970526.1|DB970526
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAAC
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAAC
EST: gi|209719122|gb|BW659399.1|BW659399
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213598741|gb|DB973879.1|DB973879
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209696598|gb|BW666920.1|BW666920
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213589338|gb|DB961671.1|DB961671
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|37995446|gb|CF807035.1|CF807035
EST:     CTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
genomic: CTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209699773|gb|BW652118.1|BW652118
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|213615193|gb|DB965001.1|DB965001
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|10847957|gb|BF070535.1|BF070535
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA
EST: gi|209720762|gb|BW677552.1|BW677552
EST:     CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGAT                         CGGGGAAGTTGCCCAAGCATAACAATGTTTCGTGGAGGGGAAACTCGGGAA
genomic: CTACACCCTCGCCCTCCACAAGGCCCTCATGTTCTTCAATGCCCAACGATgtatgtaaac ... gttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctccaaccaaaatacagtatgtataaactaacttttgtgttgtgttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAATGCAAGATGGGAAGTCTTCAGATCATTCTGCTGCGATTAAGGATCTGGT
                           aactaac  putative branch site (score: 1)
                       tataaactaactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtaaacaacttttggagtaactcaatccctcctccaaccaaaatacagtatgtataaactaacttttgtgttgtgttgttgcagCGGGGAAGTTGCCCAAGCATAACAATGTTTCATGGAGGGGAAACTCGGGAATGCAAGATGGGAAGTCTTCAGATCATTCTGCTGCGATTAAGGATCTGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC