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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttcattattccatacatatttctgtctatccagaatccactgttgaaatccatattcagcatagcttgctcagctcctatctgctgtttcaac...

Basic information

species Zea mays
transcript GRMZM2G147671_T02
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147671_T02 (Zea mays), 5'ss of exon 10
lower sequence: LOC_Os03g13970.1 (Oryza sativa), 5'ss of exon 10
CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttcattattccatacatatttctgtctatccagaatccactgttgaaatccatattcagcatagcttgctcagctcctatctgctgtttcaac---
|||||||||||||||||||| ||||||||  ||||||| |||||||| | |   | |    ||    ||||| ||||||| |||| ||| |  | | ||  ||  |  ||||   || ||   ||   ||  |   |   ||   |||| | |    |  |||| |  | | |    
CAAGAGAAGAAGGAAGACAAATCAGACAAGCCAGAAGATGAGAAGAAATAAATCAACTCCTTTGTGTCTTCCTTgtaagatttcagtatgctgt-cttacctccat--atccgatatgcatgttttgcatatagtctattcagcccttgatgactatcgttctggttgtacgatatc
















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|211525285|gb|FK977008.1|FK977008
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|211525286|gb|FK977009.1|FK977009
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|32915272|gb|CF020084.1|CF020084
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|15053742|gb|BI359287.1|BI359287
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|12968898|gb|BG265739.1|BG265739
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|15053743|gb|BI359288.1|BI359288
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|32937218|gb|CF042037.1|CF042037
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|28984428|gb|BQ539033.2|BQ539033
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAA                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTC
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTC
EST: gi|9733091|gb|BE511843.1|BE511843
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|5770174|gb|AI973348.1|AI973348
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|37382952|gb|CF628448.1|CF628448
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|15053278|gb|BI358823.1|BI358823
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|60354976|gb|DN221949.1|DN221949
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
EST: gi|4609687|gb|AI600526.1|AI600526
EST:     GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCAT                         GCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG
genomic: GACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttc ... gactttgcagGCTCACAAAGAAATTGAACATTGGTCTGCATTGGCTGCGCTTACTCTCTTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGAGAAGAAGGAAGACAAGTCAGACAAAACAGAAGACGAGAAGAACTGATGTAGCCATGTTCATGCTTCCATgtaagagttcattattccatacatatttctgtctatccagaatccactgttgaaatccatattcagcatagcttgctcagctcctatctgctgtttcaac

- - - - - - - - - - - - - - - - - - - - - AAGAAC