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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattttcatttacttgcacaacttttgtggcttttctgttacaatctttaatctagttttgttaattgtctttatttgtccttctttgatttccatgtgttcaacttaagttggttgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT

Basic information

species Glycine max
transcript GLYMA02G14040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G14040.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g49590.1 (Oryza sativa), 3'ss of exon 2
gtaagattttcatttacttgcacaacttttgtggcttttctgttacaatctttaatctagttttgttaattgtctttatttgtccttctttgatttccatgtgttcaacttaagttggttgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT
             | |  | ||||   |   |  | | | |||||   | |||  ||||     |    || |||   ||  |  |   |       ||  | | || |  |||||     |||    ||| |  ||||     | |||||| ||| | ||| || | || |||||||||||||| |||||||||||||| ||| ||||| |   ||| |||||||  |||||||| || ||||   ||
------------gtaagatacacatgctccctcccatgtttgttatgtttttttgtcta--cacgaagtttatctgccttcctggtctctcaccacacacatat-caccccaagtt-----attactaaatcatttttt--ttgtgcagATTTAAACTCAAATTGGTGTACATGTATGCTGCTGGTTTTTATACATACTCTATATTTGCTCTTCAATTCTGGGAAATAAAGCGCTCAGATTTTGGTATT

upper sequence: GLYMA02G14040.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g37080.2 (Oryza sativa), 3'ss of exon 2
gtaagattttcatttacttgcacaacttttgtggcttttctgttacaatctttaatctagttttgttaattgtctttatttgtccttctttgatttccatgtgttcaacttaagttggttgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT
                                                           ||  |   |||||    | | |  | |  | |  || | | ||  |||   |      ||  ||  | ||||   |   | |   | ||||| |||| | || |   |||||||||||||||||||||| || ||||| |||||| ||||  |  | ||||||||||| | ||| || || ||||  || 
-----------------------------------------------------------gtaatacgaattggtcctttattgcttcatgttcttacta-gttctcaggctggt---gtatatctaacaattttccccttat-ctacagATGGAAACTTAAGGCTGTCTATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGATTTTGGCGTG

upper sequence: GLYMA02G14040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G170868_T01 (Zea mays), 3'ss of exon 2
gtaagattttcatttacttgcacaacttttgtggcttttctgttacaatctttaatctagttttgttaattgtctttatttgtccttctttgatttccatgtgttcaacttaagttggttgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT
                                              |||  | |  ||     ||| | || |   ||    | ||   | | |||| || || ||    ||  |    || ||| ||  | ||         | ||||||||||| | || |   | |||||||||||||||||||| || ||||| |||||| ||||  |  | ||||||||||| | ||| || |||||||  || 
--------------------------------------------gtaattctgatccttccactgt-actttttaataaaaattctcactggttttcaatctgctc----tagatctaatggttgtgcccttac---------tctcagATTGAAACTTAAGGCTGTATATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGACTTTGGAGTG

upper sequence: GLYMA02G14040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G444643_T01 (Zea mays), 3'ss of exon 3
gtaagattttcatttacttgcacaacttttgtggcttttctgttacaatctttaatctagttttgttaattgtctttatttgtccttctttgatttccatgtgttcaacttaagttggt--tgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT
                                                         || || |  |  ||  |  | |   |  |  |   | |||    || |   || | | ||||    ||  |    |  |    | || | ||||||||||| | || |   | |||||||||||||||||||| || ||||| |||||| ||||  |  | ||||||||||| | ||| || |||||||  || 
--------------------------------------------------------gtaattcttatcctt-ccactgtactttttgatagaaattcttaatgctt--ctcaggctggtataaatctaatggttgcacccttac-tctcagATTGAAACTTAAGGCTGTATATATGTATGCTGCTGGATTCTACACATATTCCATATTTGCACTTATGTTTTGGGAAACAAGGCGTTCAGACTTTGGAGTG

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|209704151|gb|BW664769.1|BW664769
EST:     TACTTTTGGGTGGGGCCAGGGAATCAGATATGGCCAGATCAAAAGATTAA                         ATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTC
genomic: TACTTTTGGGTGGGGCCAGGGAATCAGATATGGCCAGATCAAAAGATTAAgtaagatttt ... aacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTC
EST: gi|151396062|gb|EV265939.1|EV265939
EST:     TACTTTTGGGTGGGGCCAGGGAATCAGATATGGCCAGATCAAAAGATTAA                         ATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTC
genomic: TACTTTTGGGTGGGGCCAGGGAATCAGATATGGCCAGATCAAAAGATTAAgtaagatttt ... aacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccatgtgttcaacttaagttggttgattgagcaataaccttttaacatttcagATTGAAATTGAAAGTGCTCTATATGTATGCTGCTGGATTTTATACATACTCCATACTTGCTTTAGTATTTTGGGAAACGAAGCGCTCTGACTTTGTGGTT
                                         ttttaac  putative branch site (score: 2)
                                       cctttta  CT-rich tract
                                         ttttaacattt  TA-rich tract