Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgccactatcagtataactttatattatacaatgactatcattgtttcaaaagatgctaacttttttcttatacttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAAGGACAATTTGTTCGTCAAGTGCATCCTGATCCTCTTGTTGCAGAAAAAG

Basic information

species Glycine max
transcript GLYMA04G40640.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40640.2 (Glycine max), 3'ss of exon 8
lower sequence: AT5G24470.1 (Arabidopsis thaliana), 3'ss of exon 5
gttcgccactatcagt-ataactttatattatacaatgactatcattgtttcaaaagatgctaacttttttcttatacttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAAGGACAATTTGTTCGTCAAGTGCA-TCCTGATCCTCTTGTTGCAGAAAAAG
||       || |    ||   |  ||   ||| |   |||   |  ||    || ||| ||||        ||  |   ||||||||||||| ||||||||| | || ||| |||||||||| || ||  || | ||||| ||||| ||||||||||| || |||  |    ||   |   ||   | 
gtaaaaacttaacttcgatggttccatcacatagatgaactcataacgt----aatgatactaaaggaacctttgaatgacttaacagGTTCGTTACGAGAGCCGGAAGAAATTAGCAGAGCAACGACCACGAATCAAAGGCCAATTCGTTCGTCAAGTCCAATCCACACAAGCTCCATAGTGATCCA-

upper sequence: GLYMA04G40640.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv16s0098g00900.t01 (Vitis vinifera), 3'ss of exon 7
----gttcgccac---tatca-gta--taactttatattatacaatgactatcattgtttcaaaagatgctaactttt----ttcttatacttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAAGGACAATTTGTTCGTCAAGTGCATCCTGATCCTCTTGTTGCAGAAAAAG
    || | |||    ||| | |||    | |||   ||  |  || ||   || |||  | |        || ||||     ||  |   || || ||||||||| || || |||||||| || || ||||||||||| ||| |||| |||||||| |||||||| ||||||||| |    || |    ||||||    |
ggctgtgccccatatgtattaagtaatcgattttcagttgca-gatcacacccaatgtgcccatttgctaaaatttttgagactcaaaactttgttcacagGTTCGTTATGAAAGCAGAAAGAAGCTTGCAGAGCAGCGACCCCGAGTAAAAGGACAGTTTGTTCGACAAGTGCATACCATCCCCCCACCTGCAGAGCCTG
















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|26057442|gb|CA800356.1|CA800356
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA
EST: gi|254336106|gb|GR841431.1|GR841431
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA
EST: gi|51338435|gb|CO982301.1|CO982301
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA
EST: gi|254324954|gb|GR834379.1|GR834379
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA
EST: gi|254332303|gb|GR846348.1|GR846348
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA
EST: gi|254323865|gb|GR840398.1|GR840398
EST:     CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAG                         GTTCGATACGAGAGCAGNNNNNNNCTAGCAGAGCAGCGTCCCAGAGTTAAA
genomic: CTCTAAACAAATTTCGCTTGAAAAGGAAAGAGAGATGCTATGAGAAGAAGgttcgccact ... ttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caatgactatcattgtttcaaaagatgctaacttttttcttatacttcttaacagGTTCGATACGAGAGCAGAAAAAAACTAGCAGAGCAGCGTCCCAGAGTTAAAGGACAATTTGTTCGTCAAGTGCATCCTGATCCTCTTGTTGCAGAAAAAG
                         tgctaac  putative branch site (score: 1)
                               cttttttcttatactt  CT-rich tract
                            taacttttttcttata  TA-rich tract