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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGACTACAAGGAAGGATATTATATTGGAGTTGAGGTACCTGCAGATGATCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctctttcctgttcgtagagataccatttacaaaactagatgactcatgaataaagtttttctattcaagaatcattcatttttgttcttacatt...

Basic information

species Zea mays
transcript GRMZM2G147882_T04
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147882_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g09300.2 (Oryza sativa), 5'ss of exon 3
GTGACTACAAGGAAGGATATTATATTGGAGTTGAGGTACCTGCAGATGATCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaag---ctctttcctgttcgtagaga--------taccatttacaaaactagatgactcatgaataaagtttttctattcaagaatcattcatttttgttcttacatt
|||||||||||||||| |||||||| ||  ||||| |||| | |||||||||| |||||||||| ||||| |||||||||||||||||||| ||  | ||| |     || | | |||||  |||| |         | |  || |||||||  ||| || ||||||||| |        || |   |  | ||| | |           
GTGACTACAAGGAAGGGTATTATATAGGTATTGAGATACCAGAAGATGATCCACAAGCAAACAGACCATTCTATGGTCCAAATCAGTGGCCATCCGATGgtgagttgtctttcttctgttattagaaaaaagaaaagatctcttccaaaactgaatg-ctaatgaataaaatacacactgtctaagttattccatctata----------
















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|32925957|gb|CF030769.1|CF030769
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926466|gb|CF031278.1|CF031278
EST:     GGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: GGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926635|gb|CF031447.1|CF031447
EST:     TTTATGGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCANAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TTTAT-GGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|71437198|gb|DR818248.1|DR818248
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926417|gb|CF031229.1|CF031229
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|76287315|gb|DV026883.1|DV026883
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|88756322|gb|DY540463.1|DY540463
EST:     CCAGAAGCAAACAAGCCATTTTATGGGTCCAA-TCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGGGATGGAGCAATA
genomic: CCAGAAGCAAACAGGCCATTTTATGG-TCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATA
EST: gi|71299023|gb|DR785502.1|DR785502
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926166|gb|CF030978.1|CF030978
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|88756286|gb|DY540427.1|DY540427
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32925152|gb|CF029964.1|CF029964
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|78117759|gb|DV536146.1|DV536146
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926219|gb|CF031031.1|CF031031
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926072|gb|CF030884.1|CF030884
EST:     GGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: GGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|50323931|gb|CO519057.1|CO519057
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926162|gb|CF030974.1|CF030974
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32926197|gb|CF031009.1|CF031009
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|71429426|gb|DR810476.1|DR810476
EST:     CCAGAAGCAAACAGGCCATTTTATGGGTCCAA-TCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: CCAGAAGCAAACAGGCCATTTTATGG-TCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|78078284|gb|DV506699.1|DV506699
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32925587|gb|CF030399.1|CF030399
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32925272|gb|CF030084.1|CF030084
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32925426|gb|CF030238.1|CF030238
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT
EST: gi|32925266|gb|CF030078.1|CF030078
EST:     TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAG                         AAGTATTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCGT
genomic: TCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctct ... ttcctttcagAAGTACTACCAAAATGGAGAGAAGTGATGGAGCAATATCACAGGGAGGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGACTACAAGGAAGGATATTATATTGGAGTTGAGGTACCTGCAGATGATCCAGAAGCAAACAGGCCATTTTATGGTCCAAATCAGTGGCCTTCTAAAGgtaaagctctttcctgttcgtagagataccatttacaaaactagatgactcatgaataaagtttttctattcaagaatcattcatttttgttcttacatt

- - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA