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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