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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG

Basic information

species Zea mays
transcript GRMZM2G150251_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G21190.1 (Glycine max), 3'ss of exon 2
----gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
     | |    |||   || ||||||    ||| ||    | | ||||| | |  || | ||    |     | |||||    |      |     ||| |||| |||||| ||||| ||||||||||||||||| |||||||||||||| |||||||| || || ||||| ||||||||||| ||||||
gctacaataagattca--tatttgttttgtaatt-tgtttttcattcattttttcatcttcatggtctttgc-tttgaatcttttccaatctcatgttttgcagGCTGGACTCTTTGTTTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 7
-gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttc-cagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
  |||   ||  |   |  |    ||      |  || || || | ||  | ||  ||   | ||| || | ||| | |  ||    |  |  ||||  |||| ||| || ||||||||||||||||||||||| |||||||| ||||| |||||||| || || ||||| ||||||||||| ||||||
ttagtcagttattaaaagattaagcatatgcttttcattgtataactccttttttttttcaatatg-atctttgact-ctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACCCCAGTGATGGTCAGCGTTGCAAAATCATTTGATGCTCCAATAAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 7
gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttc-cagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
 |||   ||  |   |  |    ||      |  || || || ||||||| ||  |  ||  ||       |  |  |  ||    |  |  ||||  |||| ||| || ||||||||||||||||||||||| |||||||||||||| ||||| || || || ||||| ||||||||||| ||||||
-agtcagttattaaaagatcaaacatatgcttttcattgtataattctctctttttgtttcaatatggtctttgactctcttacattcatgtattttacagGCTGGTCTATTTGTGTATGACATTTTCTGGGTTTTCTTCACTCCAGTGATGGTTAGCGTTGCAAAATCATTTGATGCTCCAATAAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
                      | |  | |     ||||||||  || || |    |  ||  |   ||  || |  || ||      ||  |   |   ||||  |  |  | || ||||  ||||| ||| | ||||| || |||||||| ||||| |||||||||||||| ||||| || ||||| || |||||||| || |||
gtaagaactgcatcttttgaatgctattcttgaaaacttgtttggac-ttctagatgaaaagaaaattcgtttgaaaatgactcaatcattcg---gtgtttgttatgcttgacttgcagGCAGGACTATTTTTCTATGATATCTTCTGGGTTTTCTTTACTCCAGTTATGGTTAGTGTTGCCAAATCCTTCGATGCTCCAATTAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 7
gagttgatttct-tctacttgtt--tcaacattgtgccagtgaatcattctctgttcattattacatgcatatg-tgaatgcaattgtccttttccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
   |||||  |  | |  ||||   |||    | |||| ||         || |||  ||  ||| |  |  || |   ||  || |    || | | || ||||  ||||||||||| ||||| ||||||||||| |||||||||||||| ||||||||||| || || || || ||||||||||| |||
---ttgatgccagtatttttgtccctcatatctatgcctgttc-ctgcattcagtttgtttgtacttctaagtgatttttgacatgggtacttgcgaattgcagGCAGGACTTTTTGTTTATGATATTTTCTGGGTCTTCTTCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ18240 (Selaginella moellendorffii), 3'ss of exon 6
gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatg--caattgtccttttccatttc--cagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
                                            | |  |||||| |   | |   | |  |  |||     || ||  | ||  | ||  ||||  || || || || |||||||| |||||||| ||||||||||| || |||||||  || || || || ||||||||||| || |||
-------------------------------------------gtaccgtgttcacttacaaaacaacactttgatgatttgttttctctctctgtctcgccagGCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAG

upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 7
lower sequence: EFJ21978 (Selaginella moellendorffii), 3'ss of exon 6
gagttgatttcttctacttgtttcaacattgtgccagtgaatcattctctgttcattattacatgcatatgtgaatg--caattgtccttttccatttc--cagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
                                            | |  |||||| |   | |   | |  |  ||      || ||  | ||  | ||  ||||  || || || || |||||||| |||||||| ||||||||||| || |||||||  || || || || ||||||||||| || |||
-------------------------------------------gtaccgtgttcacttacaaaacaacactttgatcattcgttttctctctctgtctcgccagGCCGGGCTATTCGTATATGACATCTTCTGGGTATTCTTCACTCCTGTGATGGTCACCGTTGCGAAGTCCTTTGATGCTCCCATCAAG

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|33092200|gb|CF052194.1|CF052194
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|33093608|gb|CF053602.1|CF053602
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|78123105|gb|DV541489.1|DV541489
EST:     GGATTGATATGCTGTCTTTGAGATCATTTAAAACCGGAGCCATTCTCTTG                         TGTGGACTTTTTGTGT
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGT
EST: gi|93282675|gb|EB674939.1|EB674939
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|60353103|gb|DN220076.1|DN220076
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTC
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTC
EST: gi|78123104|gb|DV541488.1|DV541488
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|32837706|gb|CD977384.1|CD977384
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|76020573|gb|DT947743.1|DT947743
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
EST: gi|76282340|gb|DV021908.1|DV021908
EST:     GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTGG                         GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG
genomic: GGATTGAGATGCTGTCATTGGGATCATTTAAAACCGGAGCCATTCTCTTGgtaagtgttt ... ccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctgttcattattacatgcatatgtgaatgcaattgtccttttccatttccagGGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG
                                   ttgtccttttccattt  CT-rich tract
      ttcattatta  TA-rich tract