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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaaatgtgatatgtggttggggatcatacagttatagcagaagatagtgaaattagttaatgtctaagtatataacgccttctgtttttcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACGCCAGTTCAAAGGACTTGCGTGCTAAG

Basic information

species Zea mays
transcript GRMZM2G362088_T02
intron # 2
splice site 3'
intron type U2

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|50330001|gb|CO525127.1|CO525127
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329193|gb|FL235162.1|FL235162
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331361|gb|FL235186.1|FL235186
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329195|gb|FL235164.1|FL235164
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCA
EST: gi|211331350|gb|FL235175.1|FL235175
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329203|gb|FL235172.1|FL235172
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|60358607|gb|DN225580.1|DN225580
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|37401257|gb|CF637991.1|CF637991
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331353|gb|FL235178.1|FL235178
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329194|gb|FL235163.1|FL235163
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331363|gb|FL235188.1|FL235188
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|149074254|gb|EE162627.2|EE162627
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329202|gb|FL235171.1|FL235171
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|149078434|gb|EE167210.2|EE167210
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|148970442|gb|EE021292.2|EE021292
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|148958503|gb|EC904742.2|EC904742
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|78091625|gb|DV519999.1|DV519999
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329196|gb|FL235165.1|FL235165
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|78084796|gb|DV513189.1|DV513189
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|40336982|gb|CK371052.1|CK371052
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|149094892|gb|EE180470.2|EE180470
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331355|gb|FL235180.1|FL235180
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|60336834|gb|DN203807.1|DN203807
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331359|gb|FL235184.1|FL235184
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331360|gb|FL235185.1|FL235185
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331354|gb|FL235179.1|FL235179
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329201|gb|FL235170.1|FL235170
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329198|gb|FL235167.1|FL235167
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331364|gb|FL235189.1|FL235189
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211333515|gb|FL235190.1|FL235190
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329204|gb|FL235173.1|FL235173
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211331358|gb|FL235183.1|FL235183
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329197|gb|FL235166.1|FL235166
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAAWACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|60400505|gb|DN233312.1|DN233312
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|149014736|gb|EE044417.2|EE044417
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG
EST: gi|211329200|gb|FL235169.1|FL235169
EST:     TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAG                         CTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGCCA
genomic: TCGACGCCGGCGGACAGCGTGCACTATGGGTTGCTCCTCCTCCGTGCCAGgttcgcacct ... tcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagtgaaattagttaatgtctaagtatataacgccttctgtttttcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACGCCAGTTCAAAGGACTTGCGTGCTAAG
                          atataac  putative branch site (score: 3)
                                cgccttctgtttttcc  CT-rich tract
      aaattagttaatgt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacaaatgtgatatgtggttggggatcatacagttatagcagaagatagtgaaattagttaatgtctaagtatataacgccttctgtttttcccattcagCTAGAAATACTGGAGGGCTGAACACTATCAGCAACGATAGCTCTCCAGACGCCAGTTCAAAGGACTTGCGTGCTAAG

aacaaat
- - - - - - - gtggttg
- - - - - - - - - - - - - catacag
- - - - - - - - - - - - - - - - - - - gcagaag