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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGGCAATATCCATCTTCAAGTGACGGACACAGTACTGCAGGAAGTCTTCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatctttctttattttaattaaaaaatgactatagatagcttgtaacagataaatccataccccacctgtccccaacacccactcgcccactcacct...

Basic information

species Zea mays
transcript GRMZM5G835213_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G835213_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 3
TGTTGGCAATATCCATCTTCAAGTGACGGACACAGTACTGCAGGAAGTCTTCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtg---gatctttctttattttaattaaaaaatgactatagatagcttgta-acagataaatccataccccacctgtccccaacacccactcgcccactcacct
||||||||||||||||||||||||||||||  || | || || || ||||||||||| ||||||||||||||||| |||||||||||||| || |||||||||    ||||||  |  ||   |  ||   |  |  | | |||   | || || | |    | | | ||        ||    |     | ||    | |   
TGTTGGCAATATCCATCTTCAAGTGACGGATTCACTGCTACATGAGGTCTTCCAAAGTATTGGTCCAGTAGAAGGATGCAAGCTCATCAGGAAGGAAAAGgtgtggaatctttgctctttgagacaaacctaacaaaaaaaatattatctatactgttttcgctagatccttttgtatccttgtaaatgtt-gctagttga---
















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|31361403|gb|CD445760.1|CD445760
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTGGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71328163|gb|DR800724.1|DR800724
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|76916928|gb|DV166611.1|DV166611
EST:     TCCAAAGCATTGGTTCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71449843|gb|DR830893.1|DR830893
EST:     TCCAAAGCATGGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|50328157|gb|CO523283.1|CO523283
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149005281|gb|EE039830.2|EE039830
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71436375|gb|DR817425.1|DR817425
EST:     CTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: CTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71764597|gb|DR962534.1|DR962534
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|148944552|gb|EC889676.2|EC889676
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149096874|gb|EE182668.2|EE182668
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71428352|gb|DR809402.1|DR809402
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTGGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|148965511|gb|EE016330.2|EE016330
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|93013850|gb|EB639370.1|EB639370
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71760191|gb|DR958128.1|DR958128
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|93012834|gb|EB638354.1|EB638354
EST:     CAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: CAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|50322712|gb|CO517838.1|CO517838
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149098619|gb|EE184624.2|EE184624
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|22545671|gb|BU098030.1|BU098030
EST:     GAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTGGCA
genomic: GAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|148938880|gb|EC883234.2|EC883234
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|94475248|gb|EB704206.1|EB704206
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71324258|gb|DR798829.1|DR798829
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149111090|gb|EE294586.2|EE294586
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|148972836|gb|EE023824.2|EE023824
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|29544652|gb|CB605032.1|CB605032
EST:     CAGAAAAGAAAAG                         -CATCCTTTGG-TTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: CAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|148961382|gb|EE012120.2|EE012120
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149103764|gb|EE289171.2|EE289171
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149104833|gb|EE290297.2|EE290297
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149095084|gb|EE180690.2|EE180690
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71431558|gb|DR812608.1|DR812608
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149073417|gb|EE161721.2|EE161721
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71317247|gb|DR795307.1|DR795307
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71773943|gb|DR971831.1|DR971831
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAAAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|5268356|gb|AI770320.1|AI770320
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTGGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149079527|gb|EE168509.2|EE168509
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|71756632|gb|DR954569.1|DR954569
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149004891|gb|EE039402.2|EE039402
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
EST: gi|149084914|gb|EE174423.2|EE174423
EST:     TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAG                         TCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA
genomic: TCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatcttt ... gatgttgcagTCATCCTTTGGTTTCATTGACTACTATGACCGCAGATATGCTGCACTAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTTGGCAATATCCATCTTCAAGTGACGGACACAGTACTGCAGGAAGTCTTCCAAAGCATTGGTCCAGTAGAAGGGTGCAAGCTCATCAGAAAAGAAAAGgtggatctttctttattttaattaaaaaatgactatagatagcttgtaacagataaatccataccccacctgtccccaacacccactcgcccactcacct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgcccac