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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtggtgctaggacttaatgtttcaagcacaccatttatcttttctgttattaatcttgatagaaatcagcacacttacaaaatatctgattcttactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTGGCATTTAGGCTTTTCCACGGGAGTGATGGTGTAGTACCCTTATCTGACA

Basic information

species Glycine max
transcript GLYMA20G31850.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31850.3 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g43060.1 (Oryza sativa), 3'ss of exon 2
gtggtgctaggacttaatgtttcaagcacaccat-ttatct----tttctgtta---ttaatct-tgatagaaatcagcacacttacaaaatatctgattcttactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTGGCATTTAGGCTTTTCCACGGGAGTGATGGTGTAGTACCCTTATCTGACA
     |  ||  ||| |  || ||  | ||  || |||||     ||||||  |   |  || | |  | ||   ||   | |    | |  || || | |||    |||   | ||||  || |||||||||||||||||||| |||||||||||  |||||||| |  ||||||| ||    ||||| || || ||  | ||  |  
-----gtaagccctttaccttccatcctcataatcttatcgcatgtttctgaaaaattggatgtattgtggatgccattgctcaactatatcatttgctgcttgtaaagGCAAGAGGAGACAAGGGTCCAATTTTTGAAGATGGACCCAATTTTGACATGGCATTTCGAGTTTTCCATGGCCAAGATGGGGTTGTTCCACTTTCACATG

upper sequence: GLYMA20G31850.3 (Glycine max), 3'ss of exon 2
lower sequence: AT4G25030.1 (Arabidopsis thaliana), 3'ss of exon 2
gtggtgctaggacttaatgtttcaagcacaccatttatcttttctgttattaatcttgatagaaatcagcacacttacaaaatatctgattct-tactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTGGCATTTAGGCTTTTCCACGGGAGTGATGGTGTAGTACCCTTATCTGACA
                       ||| | ||| | | |   |||  |     || |||| |    | |  | | |   |   | ||| ||  | ||   |||   | |  |  ||||| || || ||||||||||||||||||||||||  ||| |||||||||||||| ||    ||||| || || ||  | |||||||
---------------------gtaagta-accgtctgttggttcact---ccatattgacatttctta-tagattctgatcttgtctcatcatatatatagGCAAGAGCTGGGAAAGGACCTATATTTGAAGATGGTCCCAATTTTGATACGGCGTTTAGGCTTTTCCATGGCCAAGATGGAGTTGTCCCTCTCTCTGACA

upper sequence: GLYMA20G31850.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g03990.t01 (Vitis vinifera), 3'ss of exon 2
gtggtgctaggacttaatgttt-caagcacaccatttatcttttctgttattaatcttgatagaaatcagcacactta-caaaatatctgattct-tactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTGGCATTTAGGCTTTTCCACGGGAGTGATGGTGTAGTACCCTTATCTGACA
 |  ||  | |  |  ||| || ||    ||    | |  |  |   ||   |      ||   |||| | |||| ||   | || |||   | | | | ||||| |||||||| |||||||||||||||||||||||||||||||||||| ||||||| ||| ||||||| ||  |||| || || || ||  | ||||  |
-ttctgtgatgcttatatgattgcagaggcatgcctgacttggtgaattgccaga--aaattttaatcggaacacctaatgacatttctctctttctgcacagGTGCGTGGAGCAAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATATGGCATTCAGGGTTTTCCATGGCCGTGACGGGGTTGTTCCACTTTCTGGAA

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|192299721|gb|FG993301.1|FG993301
EST:     ATGAGCCTACTAACTTCTCATTCTCTTCACCTTTGGCTTTACCAATGCCT                         GTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTG
genomic: ATGAGCCTACTAACTTCTCATTCTCTTCACCTTTGGCTTTACCAATGCCTgtaagttatc ... tcttactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTG
EST: gi|193420751|gb|FK390926.1|FK390926
EST:     ATTCTCTTCACCTTTGGCTTTACCAATGCCT                         GTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTG
genomic: ATTCTCTTCACCTTTGGCTTTACCAATGCCTgtaagttatc ... tcttactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattaatcttgatagaaatcagcacacttacaaaatatctgattcttactcagGTTCGTGGAGCTAAAGGTCCAATTTTTGAAGATGGTCCCAATTTTGATTTGGCATTTAGGCTTTTCCACGGGAGTGATGGTGTAGTACCCTTATCTGACA
                                            ttcttac  putative branch site (score: 2)
                                            ttcttactc  CT-rich tract
                             ttacaaaatat  TA-rich tract