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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCTCAGgtaagaaacctcaatggcagatggcttgcacctcatgaattttgtcagtatatctcactacatttgaagagctggtaatttatgactacaatatttacag

Basic information

species Zea mays
transcript GRMZM2G019260_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019260_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 5'ss of exon 6
TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACT---CTCGTCTCAGgta-------agaaacc-tcaatggcagatggct-tgcacctcatgaattttgt-cagtatatctcactacatttgaagagctggtaatttatgactacaatatttacag
   |||||| || |||||||||||||| ||||||||||||||||||||||||||||||||||| ||   ||||||||||||||||||| |   |||| ||||||||       | ||||  ||| |  ||||| | | |  | || |    |||| |    || | ||  | | || |||   |||| |||| |||    |||||||||||||
---AGCACAAGGAAAAATTGGCAGTGGGTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGTTACACAAGGTTTTCTCCAGAAATATTATCCTCGGCTCAGgtataaaaaaaaaaactgtcattaccagatagttgtctatctaaaaggttttctattataaagcttgccatatctgattggctgataatatatctgcacaatatttacag

upper sequence: GRMZM2G019260_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA06G13260.1 (Glycine max), 5'ss of exon 6
TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCTCAGgtaagaaacctcaatggcagatggcttgcacctcatgaattttgtcagtatatctcactacatttgaagagctggtaatttatgactacaatatttacag------------
    |||||||||||| |||||||||| |||||||| ||| | ||||| ||||| ||||| ||||||||  ||||||| |||||| |  | || ||       |    || |     |      |   |  |||||  |  ||      ||||    | |||  |||     || | ||| | |   |  |  |||| |             
---TGCACAGGGGAAAGTTGGCAGTGGGTTTGATGTCAGTTCAGCTGTGTATGGCAGTCAGCGCTATGTGCGGTTTTCACCAGAAGTGATTTCTTCC---ACTAAGgtcccccccccccccccccccccttctcatatacctttc----atattgagcgacaactgattc-ttgcttattcaagttcatcac-tttatatgttctgtttagt

upper sequence: GRMZM2G019260_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA04G41570.1 (Glycine max), 5'ss of exon 6
TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCTCAGgtaagaaacctcaatggcagatggcttgcacctcatgaattttgtcagtatatctcactacatttgaagagctggtaatttatgactacaatattt--acag-----
    |||||||||||| |||||||||| |||||||| ||  | ||||| ||||| ||||| ||||||||  ||||||| || ||| |  | ||   ||   ||||   || || |   | |    ||| |    |  |   ||   | | |  || | |  | ||    |  |  ||  || ||  ||  ||||||  | ||     
---TGCACAGGGGAAAGTTGGCAGTGGGTTTGATGTCAGCTCAGCTGTGTATGGCAGTCAGCGCTATGTGCGGTTTTCACCGGAAGTGATTTC--TTCCACTAAGgtcccccactcatataccttttgtattgaacaacaatta--attcttgcttattcaagtttgtcactttatatattctgtttaatatattttaatagacatt

upper sequence: GRMZM2G019260_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv02s0012g02530.t01 (Vitis vinifera), 5'ss of exon 6
TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCTCAGgtaagaaacctcaatggcagatggcttgcacctcatgaattttgtcagtatatctcactaca--tttgaagagctggtaatt-tatgactacaatatttacag----
    ||||| |||||| ||||||| ||||||||||| ||  |||| || ||||| |||||||| |||||  ||||||| || ||| | || || |||  | | ||  | |||  |    | | |  ||||  |  || ||  | |  || ||  |   |  |    |  || | || |  || | | | |   | ||  | |     
---TGCACAAGGGAAAGTTGGCAGCGGTTTTGATGTCAGCTCTGCAGTTTATGGCAGTCAACGATATGTCCGGTTTTCCCCGGAAGTCCTTTCTTCT--GCTCAGgtatctctctctaggtttg--tgcatgttgtggatggttttggtgtacattgatggaagcctatagtgttgattcttgtctaaatttcacatcaatatagaa

upper sequence: GRMZM2G019260_T01 (Zea mays), 5'ss of exon 6
lower sequence: EFJ15900 (Selaginella moellendorffii), 5'ss of exon 5
TATAGCACAGGGGAAAATTGGCAGTGGTTTTGATGTTAGTGCTGCTGTCTATGGGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCTCAGgtaagaaacctcaatggcagatggcttgc-acctcatgaattttgtcagtatatctcactacatttgaagagctggtaatttatgactacaatatttacag
          |||||||||||||||||||||||||| || || || |||||||| || ||    || ||  | || || || | | | ||      ||  | ||   | | |  || |  | |  ||   |  | | || || |     |  |  |||  ||  |||    |||    |                      
---------AGGGAAAATTGGCAGTGGTTTTGATGTCAGCGCAGCGGTCTATGGAAGCCAGAAATACGTGCGCTTCTCACCGGGAGTGCT---AAGTCCAGCAATGGATCCCgttgacgtaagctttttgattttaagagttatagagtttgagttca--actcttgtttcgctttccag---------------------

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|22489427|gb|BU049350.1|BU049350
EST:     GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCCTCGTCTCAG                         GCTACAGGTGGCACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACAA
genomic: GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTC---GTCTCAGgtaagaaacc ... atatttacagGCTACAGGTGGGACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACAA
EST: gi|17970040|gb|BM276808.1|BM276808
EST:     GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCCTCGTCTCAG                         GCTACAGGTGGCACTTTCCTCCCAGATGTAGTATCAGATATTGNTACACAA
genomic: GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTC---GTCTCAGgtaagaaacc ... atatttacagGCTACAGGTGGGACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACAA
EST: gi|58029394|gb|CX724821.1|CX724821
EST:     GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCCTCGTCTCAG                         GCTACAGGTGGCACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACAA
genomic: GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATA--CT-CTCGTCTCAGgtaagaaacc ... atatttacagGCTACAGGTGGGACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACAA
EST: gi|78180064|gb|DV550437.1|DV550437
EST:     GGAGTCAACGCTATGTAAGGTTTTCTACAGAAATACTCTCCTCTTCTCAG                         GCTACAGGTGGGACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACA
genomic: GGAGTCAACGCTATGTAAGGTTTTCTCCAGAAATACTCTCGTCT-C--AGgtaagaaacc ... atatttacagGCTACAGGTGGGACTTTCCTCCCAGATGTAGTATCAGATATTGTTACACA