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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaattttctcaattttattttgttgatatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG

Basic information

species Glycine max
transcript GLYMA07G36680.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 10
-----------gtag--aattttctcaattttattttgttgatatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG
           | |   | |||  |||  | | ||||  |     | |||    | |  || || |  ||| ||| ||  |||   | |  || | |||||||||| ||||||||||| ||||| || ||||| ||||| ||||| |||||||| || || || || || || ||||| ||||||||||| ||| ||
gtaaggaataggcaatcagtttcatcatctctctttttattgctccattaactcaatatttcattatctaaaaaattaactca--ctgttttgta-gGTATGTTGAGAAAACTGGACACAGAGCAGTGTACACAACTGGAAAAGGAGCTTCTGCTGTTGGACTCACCGCAGCAGTTCACAAGGATCCAGTAACACGG

upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G139894_T02 (Zea mays), 3'ss of exon 10
gtagaattttctcaattttattttgttgatatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG
               |      |  || ||   |||     |||   |     ||   | ||  | ||   ||  |||    |||||||| || ||||| ||||| ||||| ||||| || ||||| ||||| || ||||| || ||||||||||| || ||||| || |||||||| ||| | 
--------------gtaaggactgattaatcatttt---tcagttccttgaggatgtgccaataacttgccatcttgc----agGTATGTGGAGAAAACAGGACACAGAGCAGTATATACAACTGGAAAAGGAGCCTCTGCTGTTGGTCTTACTGCTGCAGTTCACAAAGATCCAGTAACACGA

upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G44900.1 (Arabidopsis thaliana), 3'ss of exon 8
---gtagaattttctcaatt---ttattttgttgatatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG
     | || | ||   |     ||| ||  || ||||||||        | | ||||  || |  || |   | || |  | || | |||||||||||||||||||| || |||||||| ||||| ||||| || || |||||||| || ||||| || || || || || || |||||||| ||||||
gtaagaaaactatcctgaccagcttacttaattaatatcttt--------ggtgaatattttcattaactgcattaa-tgtttcttctagGTATGTTGAAAAAACTGGTCAAAGAGCTGTCTACACGACTGGAAAGGGAGCTTCTGCTGTTGGTCTAACCGCAGCAGTACACAAAGATCCAGTTACAAGG

upper sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 9
gtagaattttctcaattttattt-tg------ttga-tatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG
|||  |    | | | || || | ||      |||| |   || ||| |||  ||   |   | |     | |     | || | |  |||||||||||||||| ||||| ||||||||||| || || ||||||||||| ||||| || |||||||| || ||  | || || |||||||| |||||| | 
gtaagaccgaccccaattaatctgtgagtggcttgactggtttgataatagcaatcggttgttaacttccaaaaaaacattttttccccaagGTATGTTGAAAAGACTGGGCAGAGAGCTGTGTATACCACTGGTAAAGGTGCTTCCGCTGTGGGTCTCACAGCATCAGTACACAAGGATCCTGTCACACGC

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|15813323|gb|BI785598.1|BI785598
EST:     AATGTTCTTCTTCTCGGTGATCCAGGGACAGCGAAGTCTCAGTTTCTCAA                         GTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
genomic: AATGTTCTTCTTCTCGGTGATCCAGGGACAGCGAAGTCTCAGTTTCTCAAgtagaatttt ... ctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGC
EST: gi|193430045|gb|FK395959.1|FK395959
EST:     AAGTCTCAGTTTCTTCAA                         GTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGG
genomic: AAGTCTCAGTTTC-TCAAgtagaatttt ... ctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctttatactagtgattaataaattaacaaaatatttcaaattctgctgcaagGTATGTTGAAAAAACTGGACAGAGAGCTGTATACACTACTGGTAAAGGGGCTTCTGCCGTGGGTCTTACTGCCGCGGTTCATAAGGATCCAGTCACAAGG
                       aattaac  putative branch site (score: 2)
                                           ttctgct  putative PPT
     ttatactagtgattaa  TA-rich tract