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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttgcagctgctaaaccaatgattttccagtttccttctgttaccattgtccttttcagaagttatcaatcatataatggaattgcctgcacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATCGATCCAACTTACATGGTTCGTGCATGCCGTGCCAACGCATCTGATGCAA

Basic information

species Zea mays
transcript GRMZM2G139360_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139360_T06 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os08g34050.1 (Oryza sativa), 3'ss of exon 11
atttgcagctgctaaaccaatgattttccagtttccttctgttaccattgtccttttcagaagttatcaatcata------taatgga----attgcctgcacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATCGATCCAACTTACATGGTTCGTGCATGCCGTGCCAACGCATCTGATGCAA
          | | |||| | |  || || | ||   |||  | |||   | |||||| | | || |||||||||      |||| ||    ||    | || ||||||||||||||||||||||||||||||||||||||| ||||| || |||||||| ||||| || || |||||||| ||||| |||||||| |||||||||||||
-------atagttgaacccaaggcttccctgcttttgtct--tcccacgtttcttttctgta-ttgtcaatcataccatcataatagataacatcagttacaattttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCTGCTGATGTAAAATACATTGATCCGACATATATGGTTCGGGCATGTCGTGCCAATGCATCTGATGCAA

upper sequence: GRMZM2G139360_T06 (Zea mays), 3'ss of exon 8
lower sequence: Vv14s0108g00540.t01 (Vitis vinifera), 3'ss of exon 12
-----atttgcagctgctaaaccaatgattttccagtttccttctgttaccattgtccttttcagaagttatcaatcata-taatggaattgcctgcacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATCGATCCAACTTACATGGTTCGTGCATGCCGTGCCAACGCATCTGATGCAA
     | |  || ||   ||  ||    || |    ||| ||||  ||  | |     || |   |  || |  || ||| | ||||  |  |      |   ||||| ||||  ||||| | |   ||||| ||||||||||| || |||||||| ||||| ||||| ||| |||| || || || || || |||||||||||  
gttatagtctcatcttacaaggcagcacttgt---attttcttccattctcttccatattcttgcattttcttgatgatagtgatgggctcacacttcttcaacagATCAAGAAACATTTTAGGAGGATTGGCGTTCCAGCTGATGTTAAATACATTGATCCCACTTATATGATTCGAGCGTGTCGAGCAAATGCATCTGATGCTG

upper sequence: GRMZM2G139360_T06 (Zea mays), 3'ss of exon 8
lower sequence: PP1S114_31V6.1 (Physcomitrella patens), 3'ss of exon 11
------atttgcagctgctaaaccaatgattttccagtttccttctgttaccattgtccttttcagaagttatcaatcatataatggaattgcctgcacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATCGATCCAACTTACATGGTTCGTGCATGCCGTGCCAACGCATCTGATGCAA
      ||||     ||||  ||    |||  || | |  |    |   |    |     |||   | | | ||    |  | |   || ||  | |   |  ||| | ||||  ||||||||||||||||| || ||||| || ||||| ||||| ||||| || |||||| |||| ||||| || ||||| || |||||   ||
cgagtgatttaggattgctgtactc-cgatgctc-aatggcaaatttcgaaagcttcgaattttgaacgatttcggggacctta---aaatgtgt-cgtatcgcagGTAAAGAGACATTTCAAGGACATTGGAGTACCAGCGGATGTGAAGTACATTGATCCTACCTACATGATTCGAGCATGTCGAGCCAATGCTTCTGACCGAA

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|78543961|gb|DV621459.1|DV621459
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
EST: gi|86471567|gb|DY237937.1|DY237937
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
EST: gi|60401595|gb|DN234402.1|DN234402
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
EST: gi|60394870|gb|DN227739.1|DN227739
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
EST: gi|71756772|gb|DR954709.1|DR954709
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
EST: gi|76021502|gb|DT948672.1|DT948672
EST:     CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG                         ATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC
genomic: CATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAGgtttctgtta ... cacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgtccttttcagaagttatcaatcatataatggaattgcctgcacttttcagATTAAGATGCATTTCAAGGACATTGGTGTTCCAGCTGACGTGAAATACATCGATCCAACTTACATGGTTCGTGCATGCCGTGCCAACGCATCTGATGCAA
                                             cacttttc  CT-rich tract
                  ttatcaatcatataat  TA-rich tract