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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaataaatcctttttttaaaaagtaaaaatttccttggtgctagaagttcctaaaatgtttgaagttcgtcaaacctttcttattttttaagttcgcag

Basic information

species Glycine max
transcript GLYMA06G04230.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G04230.1 (Glycine max), 5'ss of exon 15
lower sequence: LOC_Os11g40080.1 (Oryza sativa), 5'ss of exon 8
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaataaatcctttttttaaaaagtaaaaatttccttggtgctagaagttccta---aaatgtttgaagttcgtcaaacctttcttattttttaagttcgcag----------------------------
 | ||||||||||||||| ||||| ||||| ||||| |||||  | || ||||| |||||||| |||||  | || ||||| || ||||| ||||||| |||||  | |||  ||    | |  ||       | | |    | |    |  |||     ||  ||| |    | | | ||  |     | ||  || | |||                             
AAATCCATTCTATGCTGGATTTGGAAATAGAGATACAGATGAGCTTAGTTACCTCAAGGTTGGGATTCCTATGGGCAAAATTTTTATTATAAATCCCAAGgtaa-cagatcacttagacagatggtcccttcctacatccaacaaagtttctctatctgcataattggatcaggcccagccagtgaacatattggagatggcatttagaaaatgtgtgtaaattttgtgcag

upper sequence: GLYMA06G04230.1 (Glycine max), 5'ss of exon 15
lower sequence: AT5G42870.2 (Arabidopsis thaliana), 5'ss of exon 9
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaataaatcctttttttaaaaagtaaaaatttccttggtgctagaagttcctaaaatgtttgaagttcgt----caaacctt--tcttattttttaagttcgcag---
||  |||||||||||||||||||| || || || || ||||| || ||||||||||| || ||||| |||| |||||| |||||||||||||| || | |||| | |       || ||||||  |  ||| | | || |    | |||   |  || |      | || ||    |||||  |  ||| |   || |||  | ||    
CAACCCATTCTATGCTGGTTTTGGAAACAGAGACACAGATGAGATAAGCTACCTTAAAGTCGGAATCCCCCGAGGAAAGATCTTCATTATTAACCCAAAGgtacaca-------ttcttaaaa--ttgaaaatccattagcataaaaagagac-gaattagcaacattttgtggaacaaactatgctctcaggcttaaaggactcaactg

upper sequence: GLYMA06G04230.1 (Glycine max), 5'ss of exon 15
lower sequence: Vv18s0001g10680.t01 (Vitis vinifera), 5'ss of exon 11
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaa-taaatcctttttttaaaaagtaaaaatttccttggtgctagaagttcctaaaatgtttgaagttcgtcaaacctttcttatt-ttttaagttcgcag
|| ||||||||||||||||||||| ||  |||| ||||||||  | |||||||||||||||||||||||   ||| ||||| ||||| |||||||| | |||||  |  |  ||| | |  |   |||| |     ||  ||||       |  || ||| | ||||          |  |||| |   |||| |||  ||||
CAATCCATTCTATGCTGGTTTTGGAAACCGGGACACTGATGAGTTTAGCTACCTTAAGGTTGGAATTCCAAAAGGCAAAATATTCATCATTAATCCTAAGgtaacctgcagacttctatacaggtgtaacagaaaactatgtgc-----actggtataatttgtgaaaact-----tctcttctgaccattttgagtctgcag

upper sequence: GLYMA06G04230.1 (Glycine max), 5'ss of exon 15
lower sequence: PP1S2_272V6.2 (Physcomitrella patens), 5'ss of exon 10
CAGTCCATTCTATGCTGGTTTTGGTAATAGGGATACTGATGAAATCAGCTACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaataaatcctttttttaaaaagtaaaaatt---tccttggtgctagaagttcctaaaatgtttgaagttcgtcaaacctttcttattttttaagttcgcag
 |  || ||||| ||||| ||||| ||| | |||||||||||||| || || || || ||||| || ||   ||| ||||| |||||||||||||||| ||||| ||  |     | |  |  | |  ||  |   |   |  ||||  ||||   | |  | |   |  |  ||| ||  | | |  ||  |    || |   
TAACCCCTTCTACGCTGGATTTGGGAATCGTGATACTGATGAAATTAGTTATCTCAAAGTTGGTATCCCTAAAGGCAAAATATTCATTATTAATCCCAAGgtaattattttgccatatgtagtatttgaatctaggtggcttatgctttaagtagatta--tatagaagatgagtcgaatgtgtatccttgatctgttttgt--

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|22523831|gb|BU082642.1|BU082642
EST:     ACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGG                         GGAGAGGTGGTTGTAAACCGTCGTGTTGACACAAAATCATATACTTCTCTG
genomic: ACCTTAAGGTTGGAATTCCCCTAGGAAAAATCTTCATTATTAATCCCAGGgtaaataaat ... aagttcgcagGGAGAGGTGGTTGTAAACCGTCGTGTTGACACAAAATCATATACTTCTCTG