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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctctttattttataggacaatgcttattgttgtgaatgccacatgttttcttgtgcttactttgttgaaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAGTATCATAGAGATACGCTAACTGAATCTGCTAGAATTGTGGGCTTTGAGG

Basic information

species Glycine max
transcript GLYMA14G11780.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G11780.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os09g38530.1 (Oryza sativa), 3'ss of exon 4
gtatgctctttattttataggacaatgcttattgttgtgaatgc-cacatgttttcttgt---gcttactttgttgaa-------atacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAGTATCATAGAGATACGCTAACTGAATCTGCTAGAATTGTGGGCTTTGAGG
||| | | |  | |  || |     |||||    || |   |   || || |  ||| |     |  ||| || |  |       || ||||||||||||| |||||||| || ||||||||||||||| | |||   || ||||| || |  ||        | |||  | ||||||| ||||| |||||||
gtaagttgtgcactcaattgatgcttgcttgaccttctatttattcatatatgctctggattaacaaactgtgatatataaatgtattcacagAGCAAGGAAGAGAAGTACTTCATTCACAACCATTTGTCATTTTTAGTGAAGTACCACAAGGACGATGATTCAGAACTTTCTAGAATAGTGGGATTTGAGG

upper sequence: GLYMA14G11780.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G25100.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgctctttattttataggacaatgcttattgttgtgaatgcca-catgttttcttgtgcttactttgttgaaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAGTATCATAGAGATACGCTAACTGAATCTGCTAGAATTGTGGGCTTTGAGG
||| |     |  |  ||    || |  ||   ||||    ||  | |||| |||  |   |   | || ||   ||  ||||||||| ||| | ||||||||||| ||||| || ||||| || ||||||  |||||||||||||| || ||| ||  |||| || |||||||| |||||||
gtaagtaggct--tggattcttcactatttgc-gttgcatgtgatagcatgattttctaaac---cgttatttgcatttacagAGCAAAGAGCAAAAGTATTTTATGCACAATCACTTGGCATTCACTGTCCGGTATCATAGAGATATGCAAACCGATGCTGCAAGGATTGTGGGATTTGAGG

upper sequence: GLYMA14G11780.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g06640.t01 (Vitis vinifera), 3'ss of exon 4
----gtatgctctttattttataggacaatgcttattgttgtgaatgccacatg-ttttcttgtgcttactttgttgaaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAGTATCATAGAGATACGCTAACTGAATCTGCTAGAATTGTGGGCTTTGAGG
    |||   |   ||||   ||  |  |  ||  ||||||  | ||   |||| ||||| | |||||||||| |    ||| ||||| |||||| |||||||||||||| ||||| ||||||   ||||| ||||||| ||||| ||||  || |||||| || || || |||||||| |||||||
gtaagtagattagctatta-gtaacaggaatctagttgttgccattgt-gcatgcttttcatttgcttactttataattatatacagAACAAGGAAGAGAAGTATTTTATCCACAATCATTTGATATTTACCGTCAAGTTTCATAAAGATTTGCAAACTGACTCAGCAAGGATTGTGGGATTTGAGG

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|209716722|gb|BW654317.1|BW654317
EST:     CTGTTTATCAACTTGGTTTCCATGTTGGACTCAAAGGGCAGTATAGTGGG                         AGCAAGGAGGAGGAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAG
genomic: CTGTTTATCAACTTGGTTTCCATGTTGGACTCAAAGGGCAGTATAGTGGGgtatgctctt ... aaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAG
EST: gi|209711818|gb|BW674078.1|BW674078
EST:     CTGTTTATCAACTTGGTTTCCATGTTGGACTCAAAGGGCAGTATAGTGNG                         AGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAG
genomic: CTGTTTATCAACTTGGTTTCCATGTTGGACTCAAAGGGCAGTATAGTGGGgtatgctctt ... aaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattgttgtgaatgccacatgttttcttgtgcttactttgttgaaatacacagAGCAAGGAGGAGAAGTATTTTATTCACAACCATTTGGCTTTTACTGTCAAGTATCATAGAGATACGCTAACTGAATCTGCTAGAATTGTGGGCTTTGAGG
                               tgcttac  putative branch site (score: 2)
                                          ttgaaata  TA-rich tract