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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattaagcaaaacatggtgtatttgttctctaaagccgttccctgctgcagGTATATTGCTTGGATATTCTTGGCAGCATTATACCATCTCCCCAGTTTTCAGTCAATGGGGTTGGATTTACGGATGAACCTTTCTCTTTTCCTCACCATT

Basic information

species Oryza sativa
transcript LOC_Os07g04210.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G018356_T01 (Zea mays), 3'ss of exon 1
----------------------gtaaattaag---caaaacatggtg---tatttg-ttctctaaagccgttccctgctgcagGTATATTGCTTGGATATTCTTGGCAGCATTATACCATCTCCCCAGTTTTCAGTCAATGGGGTTGGATTTACGGATGAACCTTTCTCTTTTCCTCACCATT
                      || || |||    |||   ||       |||||| |||||| |||| ||| ||   |||||||||||||| |||||||||||||||||| |||||||||| |||||||||||||||||||| |||||||| |||||||| ||||| || ||||||||||||
gtaatcattaaccaccttttatgtgaactaatactcaagttataacaaaatatttgattctctgaagctgtttccaaatgcagGTATATTGCATGGATATTCTTGGCAGCACTATACCATCTGCCCAGTTTTCAGTCAATGGGCTTGGATTTGCGGATGAATCTTTCCCTCTTCCTCACCATT

upper sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------gtaaattaagc--aaaacatggtgtatttgttctctaaagccgttccctgctgcagGTATATTGCTTGGATATTCTTGGCAGCATTATACCATCTCCCCAGTTTTCAGTCAATGGGGTTGGATTTACGGATGAACCTTTCTCTTTTCCTCACCATT
                          |  ||   |   | | ||      ||||      ||||   |||   |  || ||||| ||||||||||| ||  | ||||| || ||||||||||| ||||||||||||||||| ||||||||  |||||||  | ||  | || || || |||
gtaagtgaatatcttttattctgtcttccatggggtctatatcaaaaaagatttaacacttaaaag-gttttgttgtgtagGTACATTGCTTGGATTTTAGTTGCAGCTTTGTACCATCTCCCAAGTTTTCAGTCAATGGGTTTGGATTTGAGGATGAATTTGTCCTTGTTTCTAACAATT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaattaagcaaaacatggtgtatttgttctctaaagccgttccctgctgcagGTATATTGCTTGGATATTCTTGGCAGCATTATACCATCTCCCCAGTTTTCAGTCAATGGGGTTGGATTTACGGATGAACCTTTCTCTTTTCCTCACCATT
                               ctctaaa  putative branch site (score: 3)
                                       ccgttccct  CT-rich tract
                       tatttgtt  TA-rich tract