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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG

Basic information

species Zea mays
transcript GRMZM2G091119_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 4
------------gtatttatttagtcttat--cttttgtgctttcttattttctatttag--gagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
             |  | | ||    || |   || ||| ||| |||  | |   |||    ||||| ||  |  | |  | |    ||| |   | || ||| || |   |||||||| ||||| ||||||||||||||||| ||||| || ||||| |||||||||||||| ||||||||||||||| ||||||||||||| ||||||||||
gtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgagtgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaagGCTGTATGGGCATTGGGCAATGTTGCTGGTGATTCCCCTAAGTGCCGTGACCTTGTTCTTGCCAATGGTGCATTGCTGCCTCTGCTAGCACAGTTGAATG

upper sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 4
gtatttatttagtcttatcttttgtgct-ttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaa---agGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
   | | || |  | |   | | ||  |  |   |||   | ||| | | | |        || | | ||  |  |    |  ||||||  |  ||    |||| |||||||| ||||| ||||||||||| || ||||| ||||||||||| |||||||||  | |||||||  |||| || ||| | |||||||||||||
--gtatgttgatgcatgaatgtggtagtgctgacattacttgttttgaaattt--------tggccgagct-taccagaatactaaaactctgaaattccagGCAGTGTGGGCATTGGGGAATGTTGCTGGTGACTCTCCTAAGTGTCGTGATCTTGTTCTCAGCCATGGTGCCCTGATCCCACTGTTGGCCCAGTTGAATG

upper sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT4G16143.1 (Arabidopsis thaliana), 3'ss of exon 3
-----gtatttatttagtcttatcttttgtgctttcttat--tttctatttaggagtgtatgatgtgtgacagtgccct-----ttctctgttttaaaaca-----atacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
      ||| | ||||   || | | |  ||  |   |||  | || |||| |     | |   |    |   ||  ||     || | |||||   ||       ||    |||||||||||||| || || ||||||||||| ||||||||   |||  | || ||||| || |   | || || ||||| ||  | ||  | ||||||||||
gtaagatatgtgtttatggttttttctcatgactcaatatactgtcaattttgtttgttttcgggaacaagcatgttctaaagcttgtttgtttcttaatcttttcatgtgtaagGCTGTGTGGGCATTAGGGAATGTTGCTGGTGATTCTCCACGGTGCAGAGATCTTGTCCTTGGTCAAGGAGCTTTGATACCATTACTCTCTCAGTTGAATG

upper sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatt-tatt-tagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccc-tttctctgttttaaaacaatacaaa-agGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
|| |   ||| |  ||||    |  |||   |  | || || | |  ||| |  ||| ||       |||||   ||  |||||   |  |  |   || ||||||| ||||||||||| || |||||||| ||||| ||||| || |||||||||||| | |   |||| || |||||||||||||| || ||| | |  |
gtttcacattgtgatctttagctaggtgtcatgcttttgtcgact--ggatttcatgctgaccagttgtgccgacttgactgttaatattctctttgaacagGCTGTATGGGCTTTGGGAAACGTTGCTGGTGATTCGCCGAAATGCCGTGACCTTGTTTTAGGTCATGGGGCCTTGATGCCTCTGCTTGCGCAGCTTACGG

upper sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 4
lower sequence: EFJ38593 (Selaginella moellendorffii), 3'ss of exon 4
gtatttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
                       ||| ||| || | || |||||   |  |  ||   | |||||       ||  |||           |||   |||| || |||||| | ||||||||||||||||| ||||||||||| || || || ||  |    |    |||  |||||||  ||||||| ||| |||| |
-----------------------gtgattttttctcttgtatttccaaa-gcttggaatctgaca-------tttcctg----------gtaccgcagGCAGTATGGGCTCTTGGCAATGTTGCTGGCGACTCTCCGAAGTGCCGAGATCTCGTCTTGAATAGCAATGCCATGATGCCGTTGCTAGCACAGCTGAACG

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|211097395|gb|FL161930.1|FL161930
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148930623|gb|EE285320.2|EE285320
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149036989|gb|EE155227.2|EE155227
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|26457325|gb|CA828908.1|CA828908
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211097396|gb|FL161931.1|FL161931
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGTTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTTGGGCA-TGTTGCTGGCGATTTCTCCGAAGTGTCGTG
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTT-GGGCAATGTTGCTGGCGATT-CTCCGAAGTGTCGTG
EST: gi|211099874|gb|FL161945.1|FL161945
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092445|gb|FL161903.1|FL161903
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAAATGT-GCTGGCGATTCTCCGAAGTGTCGTGA
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAA-TGTTGCTGGCGATTCTCCGAAGTGTCGTGA
EST: gi|22521415|gb|BU080226.1|BU080226
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211089987|gb|FL161898.1|FL161898
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCA-TGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092447|gb|FL161905.1|FL161905
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|89252976|gb|DY624762.1|DY624762
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211099873|gb|FL161944.1|FL161944
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149015249|gb|EE045043.2|EE045043
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|149067410|gb|EE286973.2|EE286973
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211092451|gb|FL161909.1|FL161909
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|211097406|gb|FL161941.1|FL161941
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCCGA-GTGTCGTGA
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCC-GAAGTGTCGTGA
EST: gi|211094922|gb|FL161920.1|FL161920
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148982771|gb|EE028594.2|EE028594
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
EST: gi|148931614|gb|EC874737.2|EC874737
EST:     CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAG                         GCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC
genomic: CTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattt ... aatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaagGCTGTGTGGGCTTTGGGCAATGTTGCTGGCGATTCTCCGAAGTGTCGTGACCTTGTTCTCGCCAATGGTGCATTGATGCCTCTGCTAGCCCAGTTGAATG
                                    ttttaaaacaatacaa  TA-rich tract