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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttttaacaatgactatggttacatagttttaacaatgatttttttatagttttaacaataattatgcttacataagatattactaattagaaag...

Basic information

species Zea mays
transcript GRMZM2G029559_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 5'ss of exon 7
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtt-----tttaacaatgacta-tggttacatagttttaacaatgatttttttatagttttaacaataattatgcttacataagatat---tactaattagaaag
||||| ||||||||||| ||||| |||||  |||| ||||| || ||||||||| | || || ||||| ||||| |||||||||||||||||||| || |||| |||     |||   |   |||| |   || | |||||  | |  ||    ||||| |  ||         | || || || | |||||   ||| |||||| |  
AATCCTCTTGATTTGCTCCCTCCAAGCAAAATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAACTTCCGTGAGGTTGCTATCAAGGgtaagtttcttttttggaatctactagtcagtaaaaagtttccagatagacaaatttattgcattg-------ctttg-ttgcaaaggatatgaatacaaattaggat-

upper sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 5'ss of exon 6
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttttaacaatgactatggttacatagttttaacaatgatttttttatagttttaacaataattatgcttacataagatattactaattagaaag----------
|| || ||||||||||| ||||| |||||| |||| ||||| || ||||||||| | || || ||||| ||||| || ||||||||||||||||| || |||| |||| |         | |||  |  ||||  | || |  |  |||  |       ||  ||| || |  ||    ||  || || | | || ||||          
AACCCTCTTGATTTGCTCCCTCCAAGCAAGATGATCCTTGATGAGTGGAAGAGGTTATACTCAAACACAAAAACAAATTTCCGTGAGGTTGCTATCAAGGgtaagtttct---------tttgggaatctagtagtcactaaaaggtttccacgtagaaaagtatagtt-tctttcgggaatctagtagtcactaaaaaggtttccacag

upper sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT1G09640.1 (Arabidopsis thaliana), 5'ss of exon 7
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttt--taacaatgacta--tggttacatagtttt---aacaatgattttttta--tagttttaacaataattatgc-ttacataagatattactaattagaaag--
|| || ||||| ||||| || || |||    || |||| || |||||||||||||| || || ||||| ||| | |||||||| |||||||||||||||||| |||  |  || |     |||  | |||    || |||   | ||  || || ||||  || |   | ||||  || |   | |  |   |||||     | | |     
AACCCTCTTGACTTGCTACCACCAAGCCCTATGGTTCTAGATGATTGGAAGAGGCTTTACTCAAACACCAAATCTAACTTCCGCGAGGTTGCTATTAAAGgtgtgtggtgatatcttcctctacctagtttttcagctttgctatcagggaattatttagctattggaatcaattgttttttatcatgtctaatattgtggctcaaatgcag

upper sequence: GRMZM2G029559_T02 (Zea mays), 5'ss of exon 7
lower sequence: AT1G57720.1 (Arabidopsis thaliana), 5'ss of exon 7
AATCCCCTTGATTTGCTTCCTCCGAGCAAGTTGATTCTTGACGATTGGAAGAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgtttttaacaatgactatggttacatagttttaacaatgatttttttatagttttaacaataattatgcttacataagatat-tactaattagaaag-
||||| ||||| ||||| || || |||    || |||| || || ||||||||||| || || ||||| ||| |||||||||||||||||||||| ||||||||||| |  |  ||||||   ||||  |  | || | ||  | || ||    ||||    ||| |   || | | |  | |  |  |  |||  || |  
AATCCTCTTGACTTGCTACCACCAAGCCCAATGGTTCTCGATGACTGGAAGAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttat--atgatgacttctgttaattgttctttagaagaaattgttctaggtttatggaatcaacttgttaagaagaaagctacaaaaatccgagaca

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|31406015|gb|CD484747.1|CD484747
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60341186|gb|DN208159.1|DN208159
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|7304460|gb|AW600399.1|AW600399
EST:     GGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|5108282|gb|AI739995.1|AI739995
EST:     GAGGCTGTATTCTAACNCGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|4885899|gb|AI677019.1|AI677019
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9732286|gb|BE511038.1|BE511038
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60400022|gb|DN232829.1|DN232829
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9461816|gb|BE453919.1|BE453919
EST:     CGTGAGGTTGCTATTAAAG                         GTTTCTGGCACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|31349931|gb|CD434288.1|CD434288
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|211250756|gb|FL447432.1|FL447432
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|67018044|gb|CO446793.1|CO446793
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|213175370|gb|FM190159.1|FM190159
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTG
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTG
EST: gi|211244390|gb|FL238841.1|FL238841
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|31440873|gb|CD510304.1|CD510304
EST:     GAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9732285|gb|BE511037.1|BE511037
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|9566225|gb|BE475734.1|BE475734
EST:     ACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: ACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|4753427|gb|AI657337.1|AI657337
EST:     CAACTTCCGTGAGGTTGCTATTAAAG                         GTTTNTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: CAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60353199|gb|DN220172.1|DN220172
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|88758473|gb|DY542842.1|DY542842
EST:     GAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTTTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|29130485|gb|CB381189.1|CB381189
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
EST: gi|60353205|gb|DN220178.1|DN220178
EST:     GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAG                         GTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT
genomic: GAGGCTGTATTCTAACACGAAAACCAACTTCCGTGAGGTTGCTATTAAAGgtatgttttt ... gtattttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACT