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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatttcacttacatataaactgtggggtaactttggatcttttggtcagcatcttacattcgagattcactaatcctatttgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG

Basic information

species Zea mays
transcript GRMZM2G149224_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g29170.1 (Oryza sativa), 3'ss of exon 5
gtatggatttcacttacatataaactgtggggtaactttggatcttttggtcagcatcttacattcgagattcactaatcctatttgatattgctt--ttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
                          ||  |||  |||     | |||   ||   | | |||  |  || ||  ||||  ||||   | ||  ||  ||| |||||||||||||||||||||||||| ||||||||||||||||||||||||| |||||||| ||||| || |||||||||||
--------------------------gtatggtcccttctttgcattt---cactttttaacaaccaggagtccataatattattgttttttatttgtttctagACCTATTTCATAACAAATATGGAGGCTATAAAATTCTGGGAGTTCATGTCGTTGATTTTGGAAGGACTCGGATATGAAAG

upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G14860.1 (Glycine max), 3'ss of exon 5
gtatggatttcacttacatataaactgtggggtaactt--tggatcttttggtcagca--tcttacattcga---gattcactaatcctatttgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
         |    ||   || || | | |  |||  |  | ||| |    || || |   ||  || | |    | |    |  | |||    ||| |  ||||  || | ||||||||||||||||||||| |||| ||||| ||||||||| ||||| || |  | ||||||||||| |||||| |
---------tagactaagaatgaattattgcataaagtgattgatttgcaagttaggaaacctagcaattgctttggtattttcttgctaacatatacttgttttgtagGCATATTTCATAACAAATATGGAGTCTATGAAATTTTGGGAGTTCGTGTCAGTGGTAGTGGAAGGTCTTGGGTATGAAGG

upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA03G00480.1 (Glycine max), 3'ss of exon 5
gtatggatttcacttacatataaactgtggggtaactttggatcttttggtcagcatctt-----acattcgagattcactaatcctatttgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
        |||   |||  |   |  | ||   |    | ||| |    || || |   |     |   | | |||    |  | |||   ||||||  ||||  || | |||||||||||||||||||| ||||| ||||| ||||||||| ||||| || |  | |||||||||||||||||| |
-------attcttctactaaaggaggggggaaaagtgattgatttgcaagttagaaaacttagcaattgttgtgatattttcttgctaacagatatttgttttgtagGCATATTTCATAACAAATATGGAACCTATGAAATTTTGGGAGTTCGTGTCAGTGGTAGTGGAAGGTCTTGGATATGAAGG

upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G24240.1 (Glycine max), 3'ss of exon 5
gtatggatttcacttacatataaactgtggggtaactttggatcttttggtcagca--tcttacattcgagattcactaatcctatt--tgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
       |   ||| |   |             |    | ||| |    || |  |    |   | | |  ||    |  || |  |     ||||  ||||  || | |||||||||||||||||||||| ||| ||||| ||||||||||||| | || |  |  ||||||||||||||||| |
------ctcctactaaaggagggtaaaaaaaaaagtgattgatttgcaagttaagaaacatagaaattgctatggtattttcttgctaacattatttgttttgtagGCATATTTCATAACAAATATGGAGCTTATGAAATTTTGGGAGTTCATGTTAGTGGTAGTGAAAGGTCTTGGATATGAATG

upper sequence: GRMZM2G149224_T03 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G06080.1 (Glycine max), 3'ss of exon 5
gtatggatttcacttacatataaactgtggggtaactttggatcttttggtcagcatcttacattcgagattcactaatcctatttgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
 | | | ||   |  |  | || |||| ||  |   |||| |  ||  ||  | |     |     | | |    |  | |||    |||||  ||||  || | |||||||||||||||||||||||||| ||||||||||||||| |||||||| |  | ||||||||||||||||||||
-tgttggttcttcacaggtgtatactggggaattgatttgcaagtta-ggaaacctagcaattgatgtggtattttgttgctaacaaatatttgttttgtagGCATATTTCATAACAAATATGGAGCCTATGAAATTCTGGGAGTTCGTGTCATTGGTAGTGGAAGGTCTTGGATATGAAAG

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|87151705|gb|DY396494.1|DY396494
EST:     GAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAA                         ACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
genomic: GAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAAgtatggattt ... gcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
EST: gi|18450805|gb|BM429083.1|BM429083
EST:     GAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAA                         ACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
genomic: GAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAAgtatggattt ... gcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
EST: gi|149072461|gb|EE160738.2|EE160738
EST:     CGGAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAA                         ACCTATTCCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
genomic: CGGAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAAgtatggattt ... gcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
EST: gi|22489855|gb|BU049778.1|BU049778
EST:     AAGATAGCCGCTGGAAAA                         ACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
genomic: AAGATAGCCGCTGGAAAAgtatggattt ... gcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
EST: gi|31364547|gb|CD448902.1|CD448902
EST:     CGGAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAA                         ACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA
genomic: CGGAGAAAACTCTATCATCTGAAGATGGTGCAAAGATAGCCGCTGGAAAAgtatggattt ... gcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtcagcatcttacattcgagattcactaatcctatttgatattgcttttccagACCTATTTCATAACAAATATGGAGCCTATAAAATTCTGGGAGTTCATGTCATTGATTTTAGAAGGTCTTGGATATGAAAG
                                           ttgcttttcc  CT-rich tract
                                  tatttgatatt  TA-rich tract