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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgttttaaactgagttgcttgaattgcaatgcaaatagccaagcaatttattcatgaatcctgtataattcttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATGCGTAAGTGGGGGTTTGAAGAGGGAAAGACGCTTTTTGGTTTTGGATATG

Basic information

species Glycine max
transcript GLYMA07G34730.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G34730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g01830.t01 (Vitis vinifera), 3'ss of exon 2
-------------------gtatgcttgttttaaactgagttgcttgaattgcaatgcaaatagccaagcaatttattcatgaatcctgtataattcttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATGCGTAAGTGGGGGTTTGAAGAGGGAAAGACGCTTTTTGGTTTTGGATATG
                    |||   | | |||||   | | |  |    |      |  | |   |  ||| | ||  ||||||  |    | |||||| | ||||||  ||||  |||||| ||| |||||||||||||||||||| |||||||||   || ||||| ||| |||||||||| || || ||||||||||| ||||
ctttatctatattatatatatatatatatattaaaaaaaatagtct----tctggatcggaaaatta--caactcatg-atgaattttaaccatttctttcgtgcagATTATTGGGCGTGATTGTGTTTATTATTTCCATGACATGATAGTTGAAATGATGAAATGGGGTTTTCAAGAGGGAAAAACACTATTTGGTTTTGGTTATG
















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|209726693|gb|BW672447.1|BW672447
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|213602155|gb|DB962648.1|DB962648
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|18723137|gb|BM523445.1|BM523445
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGNTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|209699839|gb|BW661136.1|BW661136
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|213607071|gb|DB966976.1|DB966976
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|15814956|gb|BI787231.1|BI787231
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|209701668|gb|BW660985.1|BW660985
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|209717647|gb|BW671517.1|BW671517
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
EST: gi|6482538|gb|AW201795.1|AW201795
EST:     CTGAAGATAGGCATGGACTCCATGCAATTGACATTNTGGACCCTGACTTG                         ATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG
genomic: CTGAAGATAGGCATGGACTCCATGCAATTGACATTTTGGACCCTGACTTGgtatgcttgt ... ttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgcaaatagccaagcaatttattcatgaatcctgtataattcttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATGCGTAAGTGGGGGTTTGAAGAGGGAAAGACGCTTTTTGGTTTTGGATATG
                                          ttctttt  CT-rich tract
                  aatttattcatgaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcttgttttaaactgagttgcttgaattgcaatgcaaatagccaagcaatttattcatgaatcctgtataattcttttgagcagATGTTTGGAAGTGATTCTGTGTATTATTTCCATGACATGATCGTTGAAATGCGTAAGTGGGGGTTTGAAGAGGGAAAGACGCTTTTTGGTTTTGGATATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG