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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcagatgttcattccatgattttctaaaccccatataaagctagaaacagttctttaattggaggatcacctttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA

Basic information

species Zea mays
transcript GRMZM2G381051_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os05g03480.4 (Oryza sativa), 3'ss of exon 9
-----------------------------------------------------------------------------gcagatgtt--cattccatgattttctaaaccccatata-aagctagaaacagttct-----ttaattggaggatcacctttgatctctatgc----cttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
                                                                              ||| ||||  |||      |  | | |     || | | ||    |  | | ||||     || ||      |||| | |  |    |   |     ||||||||| ||||||||||||||||||||||||||||||||||| ||||| ||||| |||||||| || ||||| ||||| ||||| |||||||||||||| |   |||| ||
gtattaactgctgattgtcgtaaacttagtcagaattcttgttgctatcctgagatatttattcagttgtgtacagtacagttgtttgcatctaccaaactgccactgtacacacagaaaactgtcataattctagccattgatcctgttatcatcctcaaagagtgaacagtttttttcttgttgcagGTGTTTATGTCATGATGTCAGGGCTTGATCTAGAAAGACTTGTGTTAGCTGCAGGTCCTATCGGCCTCATGCAAGCATGCCTTGATGTAGCTGTTCCTTA

upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 10
gcagatgttcattccatgattttcta---aaccccatataaagctagaaacagttcttta--attggagg---atcacctttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
        || || |    ||||| |   ||   |  ||||||  |   ||| ||  |||   ||| | |   |    | || ||  | |    || | ||||  |||| || |||||||||||||| ||||| |||||||| || ||||| || || || || ||| ||||  ||||||||||||| ||||||||||| ||||| ||
--------tcctttctcttttttccatgcaaatactgataaagagaaggacattttgttattgttgcatgtcaagtgtcatttattaccacttattcttttgtttcagGAGTCTATGTCATGATGTCTGGGCTGGATCTGGAGAGACTTGTTTTGGCAGCTGGTCCTCTTGGTATTATGCAGGCATGTCTTGATGTTGTCCTTCCTTA

upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA11G15900.1 (Glycine max), 3'ss of exon 10
gcagatgttcattccatgattttctaaaccccatataaagctagaaacagttcttta--attggaggatcacctttgatctctatgccttttcttgtgg---cagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
       |||  |   |    | | || ||  ||  ||||  |  |||| ||  |||   ||| | |   |   |   ||  |||  ||| |  | |||   |||| || |||||||||||||| ||||| |||||||| || ||||| || || || || ||| ||||  ||||||||||||| |||||||| || ||||| ||
-----ctttctcttttttcaatgcaaatcctgattaaaagggaagaacatttagttattgttgcatgtcaagtgtcattcattatcacttattctttggtttcagGAGTCTATGTCATGATGTCTGGGCTGGATCTGGAGAGACTTGTTTTGGCAGCTGGTCCTCTTGGTATTATGCAGGCATGTCTTGATGTCGTCCTTCCTTA

upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 3'ss of exon 10
gcagatgttcattccatgattttctaaaccccatataaagctagaaacagttctttaattggaggatcacct----ttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
       || ||  || | || | | |     || ||    || |   | ||||||  ||      ||  ||    ||||  |   || | ||| |  |  |||| ||||| || |||||||||||||| ||| ||||||||||||| || || || || ||  |||| ||||||||||||||  | ||||| || ||||| ||
-tgagcatttatcaca-gcttatatgattgtaatttatta-taaatgaacttcttttcttttttcttcttctaatattgacattgttgtcctttttcttt-cagGAGTTTACGTAATGATGTCAGGGCTAGATTTGGAAAGGCTTGTTTTGGCAGCTGGGCCCCTTGGTCTTATGCAGGCATGTATAGATGTAGTTCTTCCCTA

upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: EFJ09244 (Selaginella moellendorffii), 3'ss of exon 11
gcagatgttcattccatgattttctaaaccccatataaagctagaaacagttctttaattggaggatcacctttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
                                                  ||  |   ||  | |||     ||| |        | | ||      ||||||||||||| |||||||| ||||| ||| |||| ||||||||||| ||  | || ||| | || || ||||| || ||| | || || || ||||| ||
--------------------------------------------gtgagtttgctgggtttcaagattgaacttgttactagcagcgtatc----aacagGTGTTTATGTGATGATGTCTGGGCTGGATTTGGAGAGGCTTGTATTGGCATCTGGTCCTTTGGGTCTCATGCAAGCTTGCATGGACGTGGTTCTTCCCTA

upper sequence: GRMZM2G381051_T01 (Zea mays), 3'ss of exon 8
lower sequence: EFJ07135 (Selaginella moellendorffii), 3'ss of exon 11
gcagatgttcattccatgattttctaaaccccatataaagctagaaacagttctttaattggaggatcacctttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
                                                   |  |   ||  | |||     ||| |  |     | | ||      ||||||||||||| |||||||| ||||| ||| |||| ||||||||||| ||  | || ||| | || || ||||| || ||| | || || || ||||| ||
--------------------------------------------gtgagtctgctgggtttcaagattgaacttgttaccagcagcgtatc----aacagGTGTTTATGTGATGATGTCTGGGCTGGATTTGGAGAGGCTTGTATTGGCATCTGGTCCTTTGGGTCTCATGCAAGCTTGCATGGACGTGGTTCTTCCCTA

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|148952108|gb|EC897900.2|EC897900
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|24763821|gb|CA398992.1|CA398992
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|148928298|gb|EE284912.2|EE284912
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|37375704|gb|CF624307.1|CF624307
EST:     CCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: CCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|148949902|gb|EC895400.2|EC895400
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|31352282|gb|CD436639.1|CD436639
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|60356707|gb|DN223680.1|DN223680
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|8576983|gb|BE129620.1|BE129620
EST:     TCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|40333885|gb|CK367955.1|CK367955
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|16925518|gb|BM078586.1|BM078586
EST:     TGCGAAAATGT-CTCGGTGAAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGCGAAAATGTCCTCGGTG-AAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|37394249|gb|CF634396.1|CF634396
EST:     TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCATGCGAAAATGTCCTCGGTGAAGAAGGCAAAGgtattatctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacagttctttaattggaggatcacctttgatctctatgccttttcttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTGCGGGCCCTATTGGCCTTATGCAGGCATGCCTTGATGTTGTACTTCCATA
                               tctctatgccttttct  CT-rich tract
     ttctttaatt  TA-rich tract