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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctcgagcacgcaattcacatttggtcggtcgatgtcatcttctcaccaactggaatggatttgcattggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATGTTCAGCCGCTGGATACTCGACCGTCCACTCTAATCTCCACTCGTACATT

Basic information

species Zea mays
transcript GRMZM2G471269_T05
intron # 13
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|88748263|gb|DY532404.1|DY532404
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|32852311|gb|CD991992.1|CD991992
EST:     CCGGGTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: CCGGGTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|37392581|gb|CF633542.1|CF633542
EST:     GTTCACGATAAATTACTCAAACCACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|78111058|gb|DV529455.1|DV529455
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|116827409|gb|EC871310.1|EC871310
EST:     G-TCACGATAAATTACTCAAAC-ACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|110533510|gb|EE037690.1|EE037690
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|116827243|gb|EC871126.1|EC871126
EST:     AATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: AATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|211272707|gb|FL458993.1|FL458993
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTTGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGARAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|88750452|gb|DY534593.1|DY534593
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|16919289|gb|BM074120.1|BM074120
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|116820117|gb|EC863309.1|EC863309
EST:     ACATGACGTTCGCGACGATC-AA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: ACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|111145649|gb|EE257973.1|EE257973
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|78027468|gb|DV495855.1|DV495855
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|86468083|gb|DY234453.1|DY234453
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|110516814|gb|EE021401.1|EE021401
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|5108189|gb|AI739902.1|AI739902
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
EST: gi|211175969|gb|FL481229.1|FL481229
EST:     GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAA                         GGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG
genomic: GTTCACGATAAATTACTCAAACAACATGACGTTCGCGACGATCAAAgtaagttttc ... ggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcggtcgatgtcatcttctcaccaactggaatggatttgcattggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATGTTCAGCCGCTGGATACTCGACCGTCCACTCTAATCTCCACTCGTACATT
                 ttctcac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttctcgagcacgcaattcacatttggtcggtcgatgtcatcttctcaccaactggaatggatttgcattggaattgcagGGTGGCGGGCACACGGCGCCGGAGTACGAGCCGGAGAGGTGTTTCGCCATGTTCAGCCGCTGGATACTCGACCGTCCACTCTAATCTCCACTCGTACATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA