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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgctagcctttccttcccaattatattctctaaatttgatttgccatttcactgaatagtgtatttctgcag

Basic information

species Oryza sativa
transcript LOC_Os08g42410.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G043198_T03 (Zea mays), 5'ss of exon 8
TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgcta-gcctttcctt-cccaattatattctctaaatt-------tgatttgccatttcactgaatagtgtattt--ctgcag
|||| || ||| |||| |||||||||||||||||||| || ||||| ||||||||||||||||||||||| |||||||| ||| | ||||||||||| |||||||  | | |||||  | | ||| |||||||||||  ||       ||| ||| ||| ||| |  ||| || ||||  ||||||
TGAAAGTTCTAGCTCCATATTCTGCAGAAGATGCTCGAGGTTTGCTGAAAGCAGCAATCAGGGATCCAGATCCTGTTGTGTTCCTTGAAAATGAACTTCTgtatgaaatgtctttctgtgctcaactatattctctatgttgtttgtttgaattgacatctcattatataatgcattttcctgcag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA14G02380.2 (Glycine max), 5'ss of exon 8
TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgta--------tgctagcctttccttccc----aattatattctctaaatttgatttgc-catttcactgaatagt---gtatttctgcag------------------------------------------------
|||| ||| |  | || |||||  | ||||||||||| || ||||| ||||| || || ||||| || || |||||||||||| | ||||||||| || ||||        |||| |  | |||  |||    ||  | | |        ||||||||  |||   | ||| | ||     ||||   ||                                                 
TGAAAGTCTTGTCACCATATTCATCTGAAGATGCTCGTGGTTTGCTTAAAGCTGCTATAAGGGACCCTGATCCTGTTGTTTTCCTTGAAAATGAATTGTTgtaagttgtgctgcttgattctcccaccccaaaaaagacacttgtgctgcttgatttgtacatgaaaatgagtggtcatagattttgacatcagttcttgtttcaaaaaatatttaatttgatggattatgtcctctag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA02G46380.2 (Glycine max), 5'ss of exon 8
TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgta--------tgctagcctttccttccc--aattatattctctaaat--ttgatttgc-catttcactgaatagt---gtatttctgcag------------------------------------------------
|||| ||| |  | || |||||  | ||||||||||| || ||||| ||||| || || ||||| || || |||||||||||| | ||||||||| || ||||        |||| |  | |||  |||  ||  | | ||| |   |  ||||||||  |||   | ||| ||||     ||||  |||                                                 
TGAAAGTCTTGTCACCATATTCATCTGAAGATGCTCGTGGTTTGCTTAAAGCTGCTATAAGGGACCCTGATCCTGTTGTTTTCCTTGAAAATGAATTGTTgtaagttgtgctgcttgattctcccgccccaaaaaagactcttttgctgcttgatttgtacatgaaaatgagtagtcatagattttggcatcagttcttgtttcaaaaaatatttaatttgatgaattatgtcctctag

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv17s0000g00690.t01 (Vitis vinifera), 5'ss of exon 8
TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgt----------atgctagcctttccttcccaattatattctctaaatttgatttgccatttcactgaatagtgtatttctgcag
||||||| ||   ||| |||||  |||| || ||||||||| || ||||||| || || ||||| || ||||||||||||||| | ||||| ||| ||||||          ||||| |   || ||    ||||  ||  |   |   | | |   | ||    |||||    |  | | |   
TGAAGGTGCTGGTTCCATATTCATCAGAGGACGCTCGGGGCCTGTTAAAAGCTGCTATAAGGGACCCTGACCCTGTTGTTTTCCTTGAAAACGAATTGCTgttagtgttttgatgcttgagatttctctgtaattggatcattgtatacttactcatccttgagttgaatttcatgctgcag---

upper sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 6
lower sequence: EFJ13549 (Selaginella moellendorffii), 5'ss of exon 7
TGAAGGTCCTAACTCCTTATTCTGCAGAAGATGCTCGGGGCTTGCTAAAAGCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgctagcctttccttcccaa--ttatattctctaaatttgatttgccatttcactgaatagtgtatttctgcag
| || ||| | ||||| || || || |||||||| || ||| |  | |||||||||||||||||||| || |||||||| || |||||||| ||  ||||||| |     |  | |  | |    || | |  | ||  |||  |||   |                          
TAAAAGTCGTGACTCCATACTCGGCGGAAGATGCACGAGGCCTTTTGAAAGCAGCAATCAGGGATCCCGATCCTGTTGTGTTTTTGGAAAACGAGTTGCTgtaagtggaacaatgcaactcggacttgtctcatatagttttatttttgtag-------------------------

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|33824375|gb|CF338004.1|CF338004
EST:     GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCT                         CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgctagc ... atttctgcagCTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG
EST: gi|38472326|gb|CF956457.1|CF956457
EST:     GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCT                         CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgctagc ... atttctgcagCTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG
EST: gi|218484233|gb|FG953202.1|FG953202
EST:     GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCT                         CTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG
genomic: GCAGCAATCAGGGATCCAGACCCTGTTGTTTTCTTGGAAAATGAACTGCTgtatgctagc ... atttctgcagCTATGGTGAATCATTCCCTGTTTCTGCGGAAGTTCTTGATTCTAGCTTCTG