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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct...

Basic information

species Zea mays
transcript GRMZM2G152438_T05
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os07g12830.1 (Oryza sativa), 5'ss of exon 3
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct-
|| || |||||||| ||||| || ||||| |||||||| ||||| |||||||| |||||||||||||| || ||||| |  |||||||||||||| || ||||| ||||   || ||| |  | | |   |  |     | ||  |  |||||  ||   |   |   |      |  |   |   ||||  |||  |   
TCTTCAAAGAAACCTGCAGCGCGTGCAAAAGTTCCTTTCGAGAAGGGCTATAGCCAAATGGATTGGCTTAAGCTGACCCGTACACATCCTGATCTTGCAGgtaaattgtagctgctactgtttcttcatctctgtatgtatgattat-tactggatggctagtgtacatttgaaaactttcttagttaatgtattgttact

upper sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G36160.2 (Glycine max), 5'ss of exon 3
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct-----
||    ||||| ||  | |  ||||| || |||||||||||||||||||||||||||||||| ||||| || || || |||||||||||||| || ||    | ||| | ||  | |     ||||||    |  ||  |  |  |  |  |||| |||  |||||   | |||  || |  ||| ||     ||          
TCCGTTAAGAAGCCAACGGTTCGGGCTAAAGTTCCTTTTGAGAAAGGCTATAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGC----AGgttctcatactcagtttttttactatgcaattgcaatcattatct-ttgttggctcgtctttcaaaatttcttccaattgcttagagctttgtaagagaaa

upper sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA12G01150.2 (Glycine max), 5'ss of exon 3
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct-----
||    ||||| ||  | |  ||||| || |||||||||||||||||||| ||||||||||| ||||| || || || |||||||||||||| || ||    | ||| | ||  | |     ||||||    |  |   |  |  |  |  |||| | | || |||   | |||  || |  | | ||     ||          
TCCGTTAAGAAGCCAACGGTTCGGGCCAAAGTTCCTTTTGAGAAAGGCTACAGTCAAATGGACTGGCTCAAGCTCACCCAAACACATCCTGACCTTGC----AGgttctcatactcaatttttttactatgcaatttcaatcattatct-ttgttggttcatttttcaaaatttcttccaatttcttagagctttgtaagagaaa

upper sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
lower sequence: AT5G09680.2 (Arabidopsis thaliana), 5'ss of exon 2
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagtt--gttattgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct
 || | |  || ||     | ||  | |||||||| ||||| || || ||||| |||||||||||| | ||||| |||| ||||||||| ||||| || ||||||    | | |  || |  | |   ||  |      | ||      ||  |||| | | ||    |  ||    || | | |    |            
CCAGCTAGAAAGCCTATCACTCGTACCAAGGTTCCATTTGAAAAGGGTTATAGCCAAATGGATTGGTTGAAACTTACACGAACACATCCCGATCTTGCAGgtaagcaaagctttcttttcttagtcctctttttcctaaatacattttgatg-tgttggttaatgaaagagac---aatttgtttatgcag-----------

upper sequence: GRMZM2G152438_T05 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0064g00450.t01 (Vitis vinifera), 5'ss of exon 3
TCATCCAAGAAACCCGCAGCACGGGCAAAGGTTCCTTTTGAGAAAGGCTATAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt-attgttacagactttactggtaagctgacacgaacacatactgtttgctgatctttggtactttgatctatctgcataattaattcctct--
 |  | | ||| || | ||| ||||| ||||||||||||||||| || ||||||||||||||||||||||| || || ||||||||||||||||| || ||||    ||| |  |   |     ||| |  ||   |     | ||| |     |  |   || |||| || | |    | |     || | | ||| | |  
GCTACAAGGAAGCCTGTAGCTCGGGCCAAGGTTCCTTTTGAGAAGGGTTATAGTCAAATGGATTGGCTAAAGCTTACTCAAACACATCCTGATCTTGCAGgtatagagttgagaggctcttgtattattatta--ttattttggacaaaatacctcagtatatttttgttaatgtatggtgttcttttagt-acttcttgtgg

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|149078224|gb|EE166978.2|EE166978
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
EST: gi|78081711|gb|DV510123.1|DV510123
EST:     TAGTCCAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCCAACCCGA-GGTTAATTTTCTTTGGAAGAGGTTA
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACC-GAAGGTTAATTT-CTTTGGAAGAGGTTA
EST: gi|89761685|gb|DY689600.1|DY689600
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAG
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAG
EST: gi|71333030|gb|DR803544.1|DR803544
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTG
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTG
EST: gi|71772486|gb|DR970418.1|DR970418
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
EST: gi|71439167|gb|DR820217.1|DR820217
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAAGGT-AATTTCTTTGGAAGAGG
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAA-GGTTAATTTCTTTGGAAGAGG
EST: gi|93015732|gb|EB641252.1|EB641252
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC
EST: gi|71431621|gb|DR812671.1|DR812671
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAAGGT-AATTTCTTTGGA
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAA-GGTTAATTTCTTTGGA
EST: gi|149088304|gb|EE177398.2|EE177398
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTC
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTC
EST: gi|71433873|gb|DR814923.1|DR814923
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCA
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCA
EST: gi|71422888|gb|DR805891.1|DR805891
EST:     TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTG                         GGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGGAGAGGTTAAGC
genomic: TAGTCAAATGGATTGGCTAAAACTGACACAAACACATCCTGATCTAGCTGgtaagttgtt ... ccttgtatagGGCTTAAGGGGCAGTCAAACCGAAGGTTAATTTCTTTGGAAGAGGTTAAGC