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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA

Basic information

species Zea mays
transcript GRMZM2G068586_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g48370.1 (Oryza sativa), 3'ss of exon 2
----------------tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
                |||||||||   |  || | |      |   | |||||||| ||| || | ||||||||||||||  |  | | |              | || ||| |||| ||||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||||||||||||  |||| |||||||| || ||| | |||||
atatttttccttctggtttttgtac--caactgcaatgccatatggactttttcaccatcaaatgtgcttgatgattaatatatacttttt--------------gtatatgatagCAACTGTGGATAAAGGGAAGTTCCTCATGGCTGCTAGAAGGTTTAGACGTGGTCCCCATACCGAGTACATCGTATCCCTTGATGCTGATGACCTTTCACA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G34470.1 (Glycine max), 3'ss of exon 2
-tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgatta-ataccttt---tctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
 |  |  | ||  | || |  ||| ||||     ||| |    |  ||| | ||  |   |||  |  ||||   ||||    | |||| |    |   || |||||      |||||||||||||||||  | || ||||| |||| |||| ||||| | ||||||||||| || || || |||||||| || || ||||| ||
atggtaatgcac-atatttggtttctcttttaagtttcc----tttgatgtgctcaaaatttatgtctctttatgtctcctcttttctcctccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACTCATACCGAGTATATAATTTCACTTGATGCTGATGATTTATCCCA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G35920.1 (Glycine max), 3'ss of exon 2
tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctct--ctctctctttgggcatc---tgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
|  |  | ||     | |  ||| ||||     |||||    |  ||| | |||||  ||| || ||| ||   | |  |||| |  |    || |   || |||||      |||||||||||||||||  | || ||||| |||| |||| ||||| ||||||| ||||| || || || |||||||| || |||||||| ||
tcataatgcacatattttggtttctcttttaagttttc----ttggatgtgcttga-aatttatgcctctttattgttactcttttctcccccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACCCATACTGAGTATATAATTTCACTTGATGCTGATGACTTATCCCA

upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv19s0014g01250.t01 (Vitis vinifera), 3'ss of exon 2
----tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
      | | || ||   ||| || |||||| |     | |      ||  | |  |  ||| || |  |||      |||   | || ||     ||   |||||      ||||| |||||||||||| | |||||| |||||| ||||| |||| | || ||||||||||| ||||| |||||||| || ||| |||| ||
ctttgatgtatatatataatgcatattttctcctttaatgttggta-catgtgttgtaaatgtttcaatcctggctcatctgagtgtcctt---tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATGGTGCTCACACCGAGTACATAATATCACTTGATGCTGATGACATATCTCA

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|211227913|gb|FL059245.1|FL059245
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTG-TGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
EST: gi|71772807|gb|DR970732.1|DR970732
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCT
EST: gi|211227911|gb|FL059243.1|FL059243
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTT-CTCATGGCTGCTAGAAGATT-AGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
EST: gi|211227905|gb|FL059237.1|FL059237
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTT-AGGCGT
EST: gi|211229973|gb|FL059252.1|FL059252
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
EST: gi|211227912|gb|FL059244.1|FL059244
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGT
EST: gi|211227918|gb|FL059250.1|FL059250
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGAT
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGAT
EST: gi|211229972|gb|FL059251.1|FL059251
EST:     GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT                         CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAA
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
            gattaat  putative branch site (score: 3)
                    ccttttctctctctct  CT-rich tract
          atgattaata  TA-rich tract