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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggagtgcaatcatttattagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG

Basic information

species Zea mays
transcript GRMZM5G801369_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G801369_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g68260.1 (Oryza sativa), 3'ss of exon 9
---------------------------gtaggagtgcaatcatttattagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG
                             |  |  | |      |   |  || | || || |  ||| |     | |||||||    | | | |||||| ||||||||||||||||||||||| ||||| ||||||||||||||||||||||||||||||||||||
acatgaaggaaaaacagcaacggcataacaaaacggaaggaggatcagatgttttctttttcttaaaactatccgtcttcacattctgtttcacatgcagATTTGTTGAAATTATGGCAACTGTGTTCTCTAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG

upper sequence: GRMZM5G801369_T03 (Zea mays), 3'ss of exon 10
lower sequence: AT1G08040.2 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------gtaggagtgcaatcatttattagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG
                                     |  | | |  || |  |   |  |  |||| || ||||  |        |||  ||  |  |||||||||||||| ||||||||| ||||||| || || || |||||||| |||||||||||||||||||||
gtacggctctgtactctctttctctcattctctctctttgactaacctactgaagagtgcttatatc-aattttcgataacaggtgtgttttcccacttgcagGTTTGTTGAGATTATGGCACCTGTATTTTCTAGAGAAGCATGGCGATGTGTATGGCATATGATTCAG

upper sequence: GRMZM5G801369_T03 (Zea mays), 3'ss of exon 10
lower sequence: AT2G28310.3 (Arabidopsis thaliana), 3'ss of exon 10
-----------gtaggagtgcaatcattta-------ttagattattttcttatcgaaatttctg---tttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG
            | | |  |   || ||           ||| | |||  | || |  | | |||   ||| | | |   | ||       ||||||||||||||| |||||  ||||||| ||  | || |||||||| ||||| |||||||||||||||
gtaagtctctctttgaaacgttctctttagagcaactcaagagtgtttagtcattgtcagtactgagttttctgaaaaaaattccctctcacagGTTTGTTGAAATAATGGCGCCTGTATTTTCTCGAGAAGCATGGCGATGTGTGTGGCATATGATTCAG

upper sequence: GRMZM5G801369_T03 (Zea mays), 3'ss of exon 10
lower sequence: Vv06s0004g02700.t01 (Vitis vinifera), 3'ss of exon 10
-------------------------------------------------------------------------------------------------------------------------gtaggagtgcaatcattta--ttagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG
                                                                                                                         |||    ||   || |     ||  ||| | | |         | |  |  || ||  | |   |    || ||| ||||| |||||||||||  |||| |||||  |||| || ||||| ||||| |||||||||||||||
gtatgctttctctctgttctccctctcttgcatatctggtgtgcgtgaatttgtctttatgagtgttaaaacatgcataaacacaatgtaaaaataaatattcaaatatttgtaacatagggtaaatatgttgtcttgggacttgcattttctcccctctcccctcttaggcttacagttttctacattaattcagATTTGTGGAAATTATGGCCCCTGTCTTCTCTCGGGAAGCTTGGCGTTGTGTGTGGCATATGATTCAG

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|56461966|gb|CK986264.1|CK986264
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|32838018|gb|CD977696.1|CD977696
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|78120790|gb|DV539174.1|DV539174
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|32837052|gb|CD976730.1|CD976730
EST:     GTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|6021059|gb|AW065987.1|AW065987
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|6601788|gb|AW256229.1|AW256229
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCNCCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|32917091|gb|CF021903.1|CF021903
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|50331568|gb|CO526694.1|CO526694
EST:     CTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: CTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|32839016|gb|CD978697.1|CD978697
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|32832999|gb|CD972677.1|CD972677
EST:     CCACCATGTGCAGC                         ATTTGTTGAGATTATGGCAACAGTGTTCTCCAGAAATGCATGGCGCTGTGT
genomic: CCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
EST: gi|12973204|gb|BG268364.1|BG268364
EST:     GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGC                         GTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT
genomic: GAGGAGAGACCTGGCTGGTGTAGCGACCCTCACCTGCCACCATGTGCAGCgtaggagtgc ... tgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATTATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG
                                          atctgat  putative branch site (score: 4)
     attattttcttatcga  TA-rich tract