Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
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 5'  3'   		5  
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 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaatggatttctcctgatgatcatggctgctgcttcatacatccctcacagtattgaattcacctatttctgtttgctgacag

Basic information

species Zea mays
transcript GRMZM2G008327_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g02680.1 (Oryza sativa), 5'ss of exon 6
GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaatggatttctcctgatgatcatggctgctgcttcatacatccctcacagtattgaattcacc--tatttctgtttgctgacag
|| || |||||  | ||||| | ||||||||||||||| |||||||||||||||||||||| ||      || |||  || ||||        | | ||| | |||  | |  |   |   || |  | | ||  ||  ||| |||
GATCTTGCAACTATTGTCCCTACTCTTGACCCTGCTGGTTTGGACCTTCTCTCTgtaagtcgaacaccactcacctt-tgttcattagcatgtcataatataccccaaaaaaaaagtatcccatccttgtctcgtttcactgtcag

upper sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 7
GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaatggatttctcctgatgatcatggctgctgcttcatacatccctc----acagtattgaat-tcacc--tatttctgtttgctgacag
|  || |||||  | ||||| | ||||||||||||||| |||||||||||||||||||||| ||      || |||  || ||||        | | ||| | ||| |    | || |  | || ||| |  | | ||  ||  ||| |||
GCTCTTGCAACTATTGTCCCTACTCTTGACCCTGCTGGTTTGGACCTTCTCTCTgtaagtcgaacaccactcacctt-tgttcattagcatgtcataatatacccccccaaaaaagaagagtatatcatcgttgtctcgtttcactgtcag
















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|78089349|gb|DV517723.1|DV517723
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|18174097|gb|BM349485.1|BM349485
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60394106|gb|DN226976.1|DN226976
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|4609857|gb|AI600696.1|AI600696
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|76017100|gb|DT944270.1|DT944270
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|5525740|gb|AI861633.1|AI861633
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|211440494|gb|FL452489.1|FL452489
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|76017014|gb|DT944184.1|DT944184
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|84969725|gb|DW468154.1|DW468154
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCGGGGTGGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|149096226|gb|EE181929.2|EE181929
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTGGGACCTTCTTTTT                         AAAATGTTTCGATCCGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|18171336|gb|BM341176.1|BM341176
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|50327703|gb|CO522829.1|CO522829
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGCCCTTCTCTTT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|18166325|gb|BM336164.1|BM336164
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60394498|gb|DN227368.1|DN227368
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60345525|gb|DN212498.1|DN212498
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60346409|gb|DN213382.1|DN213382
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|86470531|gb|DY236901.1|DY236901
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|148933262|gb|EC876914.2|EC876914
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTGGGACCTTCTTTTT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|211484592|gb|FL266361.1|FL266361
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60397309|gb|DN230125.1|DN230125
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|4966783|gb|AI691639.1|AI691639
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|50337361|gb|CO532487.1|CO532487
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|71768728|gb|DR966665.1|DR966665
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|60352073|gb|DN219046.1|DN219046
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|50323180|gb|CO518306.1|CO518306
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGCCCTTCTCTTT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|5739730|gb|AI947306.1|AI947306
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|7216216|gb|AW562338.1|AW562338
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|61118625|gb|DN559586.1|DN559586
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|17930906|gb|BM267866.1|BM267866
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|17930325|gb|BM267285.1|BM267285
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|6526696|gb|AW215985.1|AW215985
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|7204594|gb|AW559177.1|AW559177
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|83278334|gb|DV942342.1|DV942342
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
EST: gi|18163033|gb|BM332872.1|BM332872
EST:     TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCT                         AAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT
genomic: TGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 235

GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTTGAGCATGAGTACTTCAAGGACCTTGAAGTGGTACAGTGACCTGCTAAAT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 73

GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTTGAGCATGAGTACTTCAAGGACCTTGAAGTGGTACAGTGACCTGCTAAAT


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 119

GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTTGAGCATGAGTACTTCAAGGACCTTGAAGTGGTACAGTGACCTGCTAAAT


Block sizes: 47 (upstream exon), 42 (downstream exon)
Score: 24

GACCTGGCAACAGTAGTCCCAAATCTTGACCCTGCTGGGTTGGACCTTCTCTCTgtaagtcaaa ... ttgctgacagAAAATGCTTCGATACGAGCCAAGCAAAAGAATCACAGCGAGGCAAGCACTTGAGCATGAGTACTTCAAGGACCTTGAAGTGGTACAGTGACCTGCTAAAT