Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaacggctttttaaagttggtgtctggtctccacacgacagaacagctatttctctacaagttgattccatcgtgtgcaacgtttcaccagctgtacattttccgtctgtgacatgttcaccattgctgaagctgtttttcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGTTTTTGTCTGTGCGTGTAATAAGCAATGTTTTTGTGGAATTCTGTTAGCG

Basic information

species Zea mays
transcript GRMZM2G038791_T01
intron # 9
splice site 3'
intron type U2

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|211009691|gb|FL435043.1|FL435043
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|60338563|gb|DN205536.1|DN205536
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|91052223|gb|EB162641.1|EB162641
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCNNNNNNNNNGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|19770111|gb|BQ034832.1|BQ034832
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|74243299|gb|DT651213.1|DT651213
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|78085035|gb|DV513428.1|DV513428
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|60350838|gb|DN217811.1|DN217811
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|32913300|gb|CF018112.1|CF018112
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|71429935|gb|DR810985.1|DR810985
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|76011084|gb|DT938254.1|DT938254
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|93016209|gb|EB641729.1|EB641729
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|211276932|gb|FL386926.1|FL386926
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|86468618|gb|DY234988.1|DY234988
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|78544258|gb|DV621756.1|DV621756
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|211123271|gb|FL408205.1|FL408205
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|110204864|gb|EC886761.1|EC886761
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|60398185|gb|DN231001.1|DN231001
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|78125653|gb|DV544037.1|DV544037
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|78544420|gb|DV621918.1|DV621918
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|211292499|gb|FL395084.1|FL395084
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|76914465|gb|DV165541.1|DV165541
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
EST: gi|19769635|gb|BQ034356.1|BQ034356
EST:     GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAG                         GAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT
genomic: GTTGGTCATGAGCCATACTCCAGCTTGGATATTGACTGATGCTTAAGgtgagaacgg ... tcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacattttccgtctgtgacatgttcaccattgctgaagctgtttttcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGTTTTTGTCTGTGCGTGTAATAAGCAATGTTTTTGTGGAATTCTGTTAGCG
                                      ctgtttttctt  CT-rich tract
                                         tttttctt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagaacggctttttaaagttggtgtctggtctccacacgacagaacagctatttctctacaagttgattccatcgtgtgcaacgtttcaccagctgtacattttccgtctgtgacatgttcaccattgctgaagctgtttttcttgtgcagGAATAGTTGTGGCAGCTCGCAACCTTCTCTTTCTTTTCTTTTGGCCTCGGTTTTTGTCTGTGCGTGTAATAAGCAATGTTTTTGTGGAATTCTGTTAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA