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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcatttttttttgttgtactataattgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag

Basic information

species Zea mays
transcript GRMZM5G825524_T01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 5'ss of exon 11
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcatttttttttgttgtactataattgata-ggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag
|||||||||||||||||| || |||||| |||||||||| ||| |||| |||||||||||||| ||||| || ||||||||||||||||| |||||| | ||||| ||||||         | |     | | |   || | |  |   |    | || |||| | |   || || |||| ||  |    ||  ||  ||                                                                   
TGACATGCCAGTTGTTGGTGCAGTAACTTTATATGTATCACTTTTGACATTTACTCTCCGTGTGCATCCGGATCGGCTTGATTATGTTGATCAAGTGTTGgtaagccttcttgtgtaggggaaaaaaaatctcctaactctatagtatatgtgcatgtaatttctgtactttata-tatactttctccacaatctacaaat------------------------------------------------------------------

upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA17G37870.1 (Glycine max), 5'ss of exon 12
-TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcattttttttt-gttgtactataattgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag
  ||||||||  | || |||||  || || |  |||| || ||||| || |||||||||||||| ||||| || || ||||||||||| |||||||| || ||| ||    || ||||| | | |   | | |      |||    ||    |  |   ||||||   || | || |   |   ||    ||| ||  | |                                                                   
ACGACATGCCTATCGTGGGAGCAATAGCTTTGCATGTTTCTCTTCTTACATTTACTCTCCGTGTTCATCCGGATCGACTTGATTATGTGGACCAAGTACTggtatgttactttcaaaca-tcacagcctctttatgagatgtggtatggacaagaattgcattttagcttagctgcatcgtttctg----gaatttgtgca-------------------------------------------------------------------

upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA14G40270.1 (Glycine max), 5'ss of exon 11
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtt-tgctgactcaagaagtcatttttttttgttgtactataattgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag
|||||||||  |||| |||||  || || |  |||| || ||||| || |||||||||||||| ||||| || || ||||||||||| |||||||| || ||| ||    || ||||| | | |   ||| |      |||  |   |||   |   |   |||   |  | || |  ||   ||    ||| ||    ||                                                                  
TGACATGCCTATTGTGGGAGCAATAGCTTTGCATGTTTCTCTTCTTACATTTACTCTCCGTGTTCATCCAGATCGACTTGATTATGTGGACCAAGTACTGgtatgttactttcaaaca-tcacaacctttttatgagatgtggtatggacatgaattgcattttagctaagctgcatcatttctg----gaatttgtacag------------------------------------------------------------------

upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 5'ss of exon 11
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatg--ccgtctgtt--tgctgactcaagaagtcatttttttttgttgtactata-------attgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaac----tcgttatatttgtctggacag-------------------
||| |||||  |||| |||||  | ||||| | ||| || ||| |||||||||||||||| || |||||||| |||||||| ||||| || |||||  | ||| |  ||| ||        ||||| ||| |   |  |  ||   |  || |||   |  |  | | | | |  |  ||||||       ||| | |    | | | || |  || |  |       ||| | | ||   ||| || |||||        | |    ||   ||    |                    
TGAGATGCCTATTGTCGGAGCTATGACTCTGTTTGTCTCTCTTTTGACTTTTACTCTCCGAGTTCATCCTGATCGGCTTGACTATGTGGATCAAGTATTGgtatggtttcctttcgttgccatatgttttctaaacttttagtcagtattgtctctgtagcttgtatctctgt-ctacactatatgttcagattcagattttcattgtaaaggtgtaaaatgcatttttaaagttttatgattacttgaatctggtgtagccctggcgttaaactaattattgatccgaaaactttgtag

upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 5'ss of exon 11
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcatttttttttgttgtactataattgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag
||||||||| ||| |||||||  ||||| ||||||| || ||||| || |||||||| ||||| |||||||| |||||||||||||| || ||||| || ||| |||  |  | |     || |  ||| ||||      |    |  | || |   |   |      || ||    |  ||  |||  |  ||  |   || |                                                              
TGACATGCCTGTTTTTGGAGCAATAACTTTATATGTCTCTCTTCTTACATTTACTCTTCGTGTTCATCCTGATCGGCTTGATTATGTGGATCAAGTACTGgtatgtccccaatta-----tacaaagttcatgcttatgatccatttgcacatggttttgctaacgaatgctgatacacgatctataaaattttctggctgctgc-------------------------------------------------------------

upper sequence: GRMZM5G825524_T02 (Zea mays), 5'ss of exon 11
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 5'ss of exon 11
TGACATGCCAGTTGTTGGAGCCGTAACTCTATATGTATCGCTTCTGACTTTTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttctttaaacaattatatggtttatgccgtctgtttgctgactcaagaagtcatttttttttgttgtactataattgataggaacttaggaaggcagtgatgtaatccactaatggtctaatgttaattcaatctaactcgttatatttgtctggacag
|||||||||  || ||||||| ||||||||||||  ||| ||||| ||||||||||| | ||| || ||||| |||||||||||||| || ||||| || ||| || |  |||| | | |  |     || | |      ||||| | ||  ||    || ||||  || || || | | |     | ||  ||| | |     | |  ||| |                                                    
TGACATGCCTATTTTTGGAGCTGTAACTCTATATTCATCTCTTCTCACTTTTACTCTGCATGTGCACCCTGATCGGCTTGATTATGTGGATCAAGTTCTGgtatgtttcatttataaactcct-----ttctact-----tttgcgggct--aggttccagttttgatttttttatt-tgaaaaccaaga--ttaaggatatcatcacctaagca---------------------------------------------------

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|31356431|gb|CD440788.1|CD440788
EST:     TTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTC                         GGTGCATGTGTCAAGAAACTTTCAGGCAAAGCAAAACTTGAAGATAGCAGG
genomic: TTACTCTCCGTGTACATCCTGACCGGCTTGATTATGTTGACCAAGTGCTCgtaagtcttc ... gtctggacagGGTGCATGTGTCAAGAAACTTTCAGGCAAAGCAAAACTTGAAGATAGCAGG