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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCTGTAAATGGAGCTAACTGCAAAGAACTTGCAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctttgtggtcatccttgtgaaaatatatatatggctagtttggaaactctattgtaccaagggatttctattttcccaagggaaaatgagcta...

Basic information

species Zea mays
transcript GRMZM2G146206_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146206_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g62420.5 (Oryza sativa), 5'ss of exon 7
GGTCTGTAAATGGAGCTAACTGCAAAGAACTTGCAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctttgtg-----gtcatccttgtgaaaatatatatatggctagtttggaaactctattgtaccaagggatttctattttcccaagggaaaatgagcta
| || ||||||||||| ||||||||||||||||| ||| |||| ||||||||||||||||||||||| ||||| |||||||||||   ||   | |       | |||||    |  ||||  |||     |  | | | |      |     ||   |   | ||||  |||    ||         
GCTCCGTAAATGGAGCAAACTGCAAAGAACTTGCTGCTAAACCTGATGTTGATGGATTCCTTGTTGGAGGAGCTTCATTGAAGgtcatattcctattcctttattatcctctccatgatattgatagtagcatgtagaacataagcctagttaaacaaaacaccatttgaccagtacaatcct-----

upper sequence: GRMZM2G146206_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA15G04290.2 (Glycine max), 5'ss of exon 7
GGTCTGTAAATGGAGCTAACTGCAAAGAACTTGCAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctttgtggtcatccttgtgaaaatatatatatggctagtttggaaactc-tattgtaccaagggatttctattttcccaagggaaaatgagcta
| |||||||||||||  |||||||||||| | || || || || ||||||||||||||  | |||||||| |||||  |||||||   || |||     |||  || ||          | ||| | ||||      |   |||  | |||  || || | | | |      | || |      
GTTCTGTAAATGGAGGAAACTGCAAAGAATTGGCCGCACAGCCCGATGTTGATGGATTTTTGGTTGGTGGTGCCTCCCTGAAGgtg--atttttccccccattattttggc--------tgtggttggtttcttgctttgcatttaagcaactgactttt-tgtacttgtctgtaattag----
















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|31352539|gb|CD436896.1|CD436896
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|16919933|gb|BM074427.1|BM074427
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|33101583|gb|CF061543.1|CF061543
EST:     CAGCTCAACCAGATGTTGATGGACTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32936387|gb|CF041206.1|CF041206
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCACCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|14243822|gb|BG841520.2|BG841520
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|24767602|gb|CA402746.1|CA402746
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|149005098|gb|EE039627.2|EE039627
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTTTGCCACTGTCAAGTTTTCATTTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|24769561|gb|CA404690.1|CA404690
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|71757929|gb|DR955866.1|DR955866
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|16927318|gb|BM080387.1|BM080387
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|149105683|gb|EE291241.2|EE291241
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32850309|gb|CD989990.1|CD989990
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|5791027|gb|AI977819.1|AI977819
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|101388915|gb|EB816439.1|EB816439
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTTTGCCACTGTCAAGTTTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32909130|gb|CF013942.1|CF013942
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32931721|gb|CF036533.1|CF036533
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|6012502|gb|AW061939.1|AW061939
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|211412106|gb|FL450398.1|FL450398
EST:     CAGTTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|9743048|gb|BE519196.1|BE519196
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|33094011|gb|CF054005.1|CF054005
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|149097485|gb|EE183357.2|EE183357
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32930797|gb|CF035609.1|CF035609
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|211291624|gb|FL459848.1|FL459848
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|32941523|gb|CF046342.1|CF046342
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|148995362|gb|EE034576.2|EE034576
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTTTGCCACTGTCAAGTTTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|110517584|gb|EE022171.1|EE022171
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|83278303|gb|DV942311.1|DV942311
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|16927255|gb|BM080324.1|BM080324
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|18178250|gb|BM379460.1|BM379460
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|71330644|gb|DR802095.1|DR802095
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|33093246|gb|CF053240.1|CF053240
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|211297519|gb|FL438922.1|FL438922
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|31628067|gb|CD526427.1|CD526427
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC
EST: gi|110960987|gb|EE181039.1|EE181039
EST:     CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAG                         CCGGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCTTCTGCC
genomic: CAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctt ... ttctatacagCCTGAATTCGTGGACATCATCAAGTCTGCCACTGTCAAGTCTTCATCTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTCTGTAAATGGAGCTAACTGCAAAGAACTTGCAGCTCAACCAGATGTTGATGGATTCCTTGTTGGTGGAGCCTCATTGAAGgtatcatctttgtggtcatccttgtgaaaatatatatatggctagtttggaaactctattgtaccaagggatttctattttcccaagggaaaatgagcta

- - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG