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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC

Basic information

species Zea mays
transcript GRMZM2G435824_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: 13113.m00212 (Oryza sativa), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                                                                  | |   | ||| |    ||          ||      ||| | |  ||   | | | | || |||  | ||||  |    |||||    |||   | |  | | | |||||||| |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
----------------------------------------------------------------------------------ggtcggagatgtaaat-cattttcattatctaagctctctccatcatg---catgcatggc-catggaggtga--cgggggttgc----catttgttgcgtgtgtgtgcagAGAGGTGCAGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC

upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G10350.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                                                                       || ||  |     |   ||      |  || |   | |   |||   |||| | | |     |    | ||  |  ||    ||    | |   || | |  | |||||  |||  ||| || ||  | || || ||||| |||||||||||||||||||||||| | || || ||||||||||| ||||| ||||| || ||   
---------------------------------------------------------------------------------------tatatatatatatatatatat-atatatagatatatatgcatgaaaagttcattgtt-----atacaattctctaatttgtatgttatctttttattttttggaagAGAGATGCAAGATAGGATCAACACCACAAAACGAATGGTACTTCTTCAGCCACAAGGACAGGAAATATCCGACGGGGTCAAGGACCAACCGTGCTACTCA

upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0089g01120.t01 (Vitis vinifera), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                                                                      | |||  ||  |  | || |      |   |  | | |||      | |||  |   | ||     |||     |   |   ||| ||     | |||| ||||||||||  ||  |||| |||||  | || || || ||||||||||||||||||||||||||  | ||||| || || ||||| ||||| ||  | ||||| | 
--------------------------------------------------------------------------------------caacagccaaacatatccctaatatttattggctatactt------ttgttgatgaattattattttgatgttgtaacttagttg-attttgtgtatatgtatgcagAGAGATGTAGGATTGGGTCCACACCACAAAATGAGTGGTACTTCTTCAGCCACAAGGATAGGAAGTATCCAACAGGGTCAAGGACTAATAGAGCCACAAA

upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S6_458V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgccc-ccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
||| |   |    |  |         |  |     || | |        |  |  |    ||    | ||  |   || |  | |   || |   ||     |  ||             | |   ||   |  |  |     || ||  ||   | ||  |  ||||   |    |||| ||  |   ||||||   | ||     ||   | | |   |||| ||| ||||||||||||||||||||||||   || || || || ||     |  | |||||         
gta-agccaacgaacccacattttgcaggatttcattaacgttggttgaggttagaaaactggaactcgctttagttcgaggaat--atataaatagatatggatatatatatatatatatatatatgagaatactctaagtactgata-acacca-tctgtacttgcggcg---acatcagAGGTG--TGCAGAATTG-GCGACGACGCACCCGAGAATCAGAGCGACTGGTACTTCTTCAGCCACAAGGACAAGAAATATCCTACTGGAAACCGCGCAAACCG---------

upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ32131 (Selaginella moellendorffii), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagtt-actacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                                        | | |   | ||  |||  |||| |   | | | |    |     | || | |     | ||  | | | |  | | |   || || ||||           |||||| || ||||| |    |      | |  ||||   |||||| || || || |||  |||| ||||||||||||||||||||||||| |||   || |||||||| ||| ||||||| ||| | |||||   
--------------------------------------------------------gtaag---acggtcatccctcaagcttctcatttcggaaaaaaaaaaccgttctt-tggaagtctttgcgttctaaatgtctcttctctcactg--------ccatcgatgaattgcgtttgcc------acacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG

upper sequence: GRMZM2G435824_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ37712 (Selaginella moellendorffii), 3'ss of exon 1
gtatatatattatatacttggcaaataaaaaccagttcatgcccccatgcatgcatgcatgtccatggcgatcaatcaatcagttactacatgcaggcgcagccatgccggctgcagcttcttcttgttgagtcgttcgtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                                                | | || |||  |    || | ||   | | ||   |   |  |||      |    |  |||  |        ||| ||  ||    ||   |||||| || ||||| |    |      | |  ||||   |||||| || || || |||  |||| ||||||||||||||||||||||||| |||   || |||||||| ||| ||||||| ||| | |||||   
--------------------------------------------------------------gtaagacggtcatccctcaagcttctcatttcgggaaaaaaaaaaccgttctttggaagtctttgc-gttctaaatgtctcttctctcactg---ccatcgatgaattgcgtttgcc------acacacagAACGGTGCCGAATTGGCTCCGCGGAGCAGCACGAGTGGTACTTCTTCAGCCACAAAGACAAGAAATACCCGACCGGGACGAGGACCAACAGAGCCACCGG

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|211253998|gb|FL155177.1|FL155177
EST:     GGTCATCAGGGAGGTCGACCTCAACAAGATCGAGCCATGGGAGCTGCAAG                         AGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCC
genomic: GGTCATCAGGGAGGTCGACCTCAACAAGATCGAGCCATGGGAGCTGCAAGgtatatatat ... atatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcgctcatccacgtgaatccatcgttgcattgcatgcatcggatatatatgcagAGACGTGCCGGATCGGGTCGGCGCCGCAGAACGAGTGGTACTTCTTCAGCCACAAGGACCGCAAGTACCCGACGGGGTCGAGGACGAACCGCGCCACGAC
                                           atatatat  TA-rich tract