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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaaactttgcaatctatgactatctatcattcatattgctttttaatttgcaatggtcacatactgcttctattgattactcactatgtgaacttatctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCTTCTTTGTTCCATTAG

Basic information

species Glycine max
transcript GLYMA03G07890.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 10
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaattaaactttgcaatctatgactatctatcattcatattgctttttaatttgcaatggtcacatactgc-ttctattgattactcactatgtgaacttatctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCTTCTTTGTTCCATTAG
             | |||| ||  ||| |     |  | |||  ||    |||| | | |||||   | | | |||| |||||| || | |      |   |  |||  ||| |||||||| || || ||||||||||| || |||||||| || || |||||||||||||| || ||
-------------gtaatccat--ctaaccggtttcaacattatttggctattttccaaggtcattcattaccttctcttgattgctgattggccatatcaacttatttcagATGGGGAGCTACTCTAATGAACTCTTTCCTCTTCAATGTCGGCCTCATTCTTCTTTGTTCAATCAG

upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 10
gtaattaaactttgcaatctatgactatctatcattcatattgctttttaatttgcaatggtcacatactgcttctattgattactcactatgtgaacttatctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCTTCTTTGTTCCATTAG
            || ||  ||||      |  ||||  | ||  | |||  || |  || ||||       ||| |  ||||| || |||     ||||| ||| |||||||||||| || || || |||||||| ||||| || |||||||| |||||||| || |||||||| ||
--------gtaatgaaaattatggt--gttgccattt-tgtta-tgtttggttggtcattgtcat------cttttggtgattgcttactgaaccaactt-tctttggcagGTGGGGTGCCACTCTTATGAACTCCTTTCTTTTTAATGTGGGACTTATTCTCCTGTGTTCCATCAG
















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|18730359|gb|BM525833.1|BM525833
EST:     GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAA                         GTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
genomic: GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAAgtaattaaac ... tctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
EST: gi|58025422|gb|CX712163.1|CX712163
EST:     GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAA                         GTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
genomic: GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAAgtaattaaac ... tctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
EST: gi|58015128|gb|CX701870.1|CX701870
EST:     TCATTACTATACATCCCATGAA                         GTGGGGAGCGACATTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
genomic: TCATTACTATACATCCCATGAAgtaattaaac ... tctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
EST: gi|192326624|gb|FK018496.1|FK018496
EST:     GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAA                         GTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT
genomic: GCCATGATGCTTGGGCTGAGACTAGTTTTCATTACTATACATCCCATGAAgtaattaaac ... tctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggtcacatactgcttctattgattactcactatgtgaacttatctatggcagGTGGGGAGCGACACTCATGAACTCTTTTCTGTTCAATGTGGGGCTTATTCTTCTTTGTTCCATTAG
                          tactcac  putative branch site (score: 1)
                                         cttatct  putative PPT
                   tattgatta  TA-rich tract