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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattctattaccttttctattatgaatgttatgattgccttatggtataattttggaagtgtttttctttactaatacatatttagatttagccaaaatactctgttaatcttctctgtcttatctctttatctctctgcctcttgcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTTGCTCAG

Basic information

species Glycine max
transcript GLYMA07G08030.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 18
gtaatattctattaccttttctattatgaatgttatgattgccttatggtataattttggaagtgtttttctttactaatacatatttagat-ttagccaaaatactctgttaat--cttctctgtcttatctctttatctctctgcctcttgcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTTGCTCAG
                                                              |    ||  ||  || || |||||     | |||   |   || ||| | |     ||     |  |||||| | ||    || | |||  | |||  |||||||||| |||||||||||||||||||| ||  | || || || || ||||| |||
------------------------------------------------------------gggcccattctttgtcttatgcatatccttttgttatatactgtattctatcaccgatttaataatactatctcctaatggaactacatct-actttta-agGTTGTCCCTGAGACCTTGGAACCAAGTCTCCAGTTGGCTGCTGCTGTTCTTGCACAG

upper sequence: GLYMA07G08030.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 16
------gtaatatt-ctattaccttttctattatg-aatgttatgattgcct-------tatggtataattttggaagtgtttttctttactaatacatatttagatttagccaaaatactctgttaa-----------tcttctctgtcttatctctttatctct---ctgcctcttgcatt--------tgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTTGCTCAG
       |||| || || |  | ||||||||| || ||| || |||   | |       ||| | || | ||    |   | |     |||||| ||  ||    |||     |  ||| | | |||            ||   |||   | | | ||| |  | |    ||| || |   ||        | |||||||| ||||||||||||||||||||||| ||  |||| || || || ||||| |||
gtatcattaattttactttccctttttctattctgtaattttttgacctcttgggcatttattgcattagttattgaaaatctacaactactaaaactaatacctattatcggagtatattttcttagggtttttgtcttcccttctaaatcaccccttgacttttattttgcatcatctgttaaaaaacatacagGTTGTTCCAGAGACCTTGGAACCAAGTCTGCAGTTAGCTGCTGCTGTTCTTGCACAG
















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|16104878|gb|BI892618.1|BI892618
EST:     CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCT                         GTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTT
genomic: CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCTgtaatattct ... gcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTT
EST: gi|13125620|gb|BG316190.1|BG316190
EST:     CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCT                         GTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGNCGTGCTT
genomic: CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCTgtaatattct ... gcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTT
EST: gi|13479391|gb|BG508734.1|BG508734
EST:     CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCT                         GTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTT
genomic: CTCATGATGTTGATCATGGATTGAATTTAGAAAAGGCTGGAGCTACCGCTgtaatattct ... gcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgttaatcttctctgtcttatctctttatctctctgcctcttgcatttgcagGTTGTCCCAGAGACCTTGGAACCAAGTCTTCAACTAGCAGCCGCCGTGCTTGCTCAG
   tgttaat  putative branch site (score: 3)
         tcttctctgtcttatc  CT-rich tract
     ttaatctt  TA-rich tract