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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATGTCTACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcatcttgctaccactgcggttcatgctttcaattttacagtctcccccgcattatcaaatctgccagtggcagttggtaatggtgtcaatgtt...

Basic information

species Oryza sativa
transcript LOC_Os04g52900.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 19
lower sequence: GRMZM2G084181_T01 (Zea mays), 5'ss of exon 19
AAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATGTCTACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcatcttgctaccactgcggttcatgctttca-attttacagtctcccccgcattatca-aatctgccagtggcagttg-gtaatggtgtcaatgtt
 || || ||||| ||||||||||||||||| ||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||| || |||||| ||||| | |  | |   || ||||  |  ||| |   | || | || |   |  |  |  |  | |   |  |   |     || ||   || |   | 
GAAGCAAAGAGTTTCAATGGCAAGAGCTGTGTATTCTGATTCAGATGTGTACATATTTGATGATCCACTCAGTGCATTAGATGCCCATGTTGGCCGGCAGgtgaattcaccatcttgct--tgtggtttctatttttatgatctatactcacatactgaaaaggatgaaccatcgttcagatccatgttattaggttacctt-

upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 19
lower sequence: AT1G30420.1 (Arabidopsis thaliana), 5'ss of exon 19
AAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATGTCTACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcatc-----ttgctaccactgcggttcatgctttcaattttacagtctcccccgcattatcaaatctgccagtggcagttggtaatggtgtcaatgtt---------------------------------
 || |||||||| |||||||| || || || || ||  |||||||| | |||||||||||||||||  | ||||| |||||||| ||||||| ||  |||||    | ||      |   || ||   | | | ||   |  |   | |||     | |     || | ||| ||    | ||  ||  | ||| | ||| |  |                                 
GAAGCAGAGAGTTTCAATGGCTAGGGCAGTCTACTCAAATTCAGATATTTACATATTTGATGATCCTTTCAGTGCTTTAGATGCTCATGTTGCTCACCAGgtattcttatggttgatccataacataactgataatatctcaaggctgacataaatcgcattgataactaatgtgtgtttagccattt-tcatgatttcatttctcatctaatgacagacttctctgaatcaagttag

upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 19
lower sequence: AT1G30410.1 (Arabidopsis thaliana), 5'ss of exon 21
AAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATGTCTACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcat------cttgctaccactgcggt----tcatgctttcaattttacagtctcccccgcattatcaaatctgccagtggcagttggtaatg----gtgtcaatgtt---------------------------------------------------------------
 || ||||||||||||||||| || || || || ||  |||||||||| |||||||| ||||||||  |||||||||||||||| ||||||| ||  |||||    | ||       ||  |||      | |    || |  |    || |||  || |   | ||  | |||  | ||       |   || | ||     || | |   ||                                                               
GAAGCAGAGAGTCTCAATGGCTAGGGCAGTCTACTCAAATTCAGATGTTTACATATTCGATGATCCTTTGAGTGCATTAGATGCTCATGTTGCTCACCAGgtattctaatggttgatttattacataaatgataacctcttaatgctgatattaatgtttgttcagccatttcatctatgaggaatccgcatgatcatccactgtattagaattttagttctcagtaatttttttaggtacatctgacgacagacttctctgaatcacaagtaacag

upper sequence: LOC_Os04g52900.2 (Oryza sativa), 5'ss of exon 19
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 5'ss of exon 19
AAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATGTCTACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcatcttgctaccactgcggttcatgctttcaattttacagtctcccccgcattatcaaatctgccagtggcagttggtaatggtgtcaatgtt--
||| ||  |||| || ||||| || || || |||||  |||||||||| |||||||||||||| ||  | |||||  ||||||| ||||| |||||||||||   |   || || ||  |    | |  ||   || |   |  | ||   |       | || |   |     |   | | | || || | |  |  |   
AAAGCAACGAGTTTCCATGGCTAGGGCAGTATATTCCAATTCAGATGTGTACATATTTGATGACCCTTTAAGTGCTCTAGATGCTCATGTGGGTCGACAGgtaattatttcatgttaa-ataatgttaaattacttgaggatcgctgttatcattattgtttctacattctgctttatactcgata-tgatttgtagatcat

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|157650622|gb|EX450256.1|EX450256
EST:     ACATATTTGATTATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAG                         GTATTTGACAAATGTATTAAAGAAGAGCTACAGCACAAAACTAGGGTTCTT
genomic: ACATATTTGATGATCCACTGAGTGCATTAGATGCCCATGTTGGTCGACAGgtgcattcat ... gcttatgcagGTATTTGACAAATGTATTAAAGAAGAGCTACAGCACAAAACTAGGGTTCTT