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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGTTGCCTCGTGCTCTGCTTCTTCGGTTTTCAGGAGCGTCGGCCATTGCTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttcttgacgcggtctgcgatccgattgtttcggctcccttgcacaccattgggactcgttacccatctcgtggactcttctgtttcttctccttt...

Basic information

species Zea mays
transcript GRMZM2G006468_T04
intron # 1
splice site 5'
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|71774337|gb|DR972215.1|DR972215
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|37420659|gb|CF648025.1|CF648025
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         ---G-TTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|78113266|gb|DV531659.1|DV531659
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211186704|gb|FL252849.1|FL252849
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211316809|gb|FL363634.1|FL363634
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|116816167|gb|EC858873.1|EC858873
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|60399773|gb|DN232583.1|DN232583
EST:     CAGACCATTGGGACTCCCTCGTGCGTTTTCC--A--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211436012|gb|FL361903.1|FL361903
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211522061|gb|FL312388.1|FL312388
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|13178341|gb|BG349599.1|BG349599
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|14242681|gb|BG840373.2|BG840373
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|74242180|gb|DT650094.1|DT650094
EST:     TGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: TGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|76010926|gb|DT938096.1|DT938096
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211186705|gb|FL252850.1|FL252850
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATAGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211186707|gb|FL252852.1|FL252852
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211134484|gb|FL356345.1|FL356345
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211186703|gb|FL252848.1|FL252848
EST:     AGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: AGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|32918930|gb|CF023742.1|CF023742
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAG                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
EST: gi|211453015|gb|FL324462.1|FL324462
EST:     CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCC-AA--A-                         TCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG
genomic: CTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttctt ... tgccatgtagTCAGGTTGATGGCGATGGAGGGACCAGTTTTATGCCGCCCTGCAATGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGTTGCCTCGTGCTCTGCTTCTTCGGTTTTCAGGAGCGTCGGCCATTGCTGCTGGAAAAGCAGACCATTGGGACTCCCTCGTGCGTTTTCCAAATCAGgttcgttcttgacgcggtctgcgatccgattgtttcggctcccttgcacaccattgggactcgttacccatctcgtggactcttctgtttcttctccttt

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