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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtcacctgttattaaccctcttcgtccttatagaattgtgttctattgtgaaaactactcctataatgctgtgttattttgacacactgatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCAGAATGGGACCTGCTGATACCTTGATTGAGACATTTTGACGCCGGAGTTG

Basic information

species Zea mays
transcript GRMZM2G171745_T02
intron # 8
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|74242378|gb|DT650292.1|DT650292
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|60346665|gb|DN213638.1|DN213638
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|78118434|gb|DV536820.1|DV536820
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAA-G                         GAGGAGGCTACCACCGGCGTAG
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAG
EST: gi|211195518|gb|FL100642.1|FL100642
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTA
EST: gi|86472724|gb|DY239094.1|DY239094
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|71427328|gb|DR808378.1|DR808378
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAA                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|148943925|gb|EC889005.2|EC889005
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCACCCACCGGCGTAGTTTTCA-TTAGCCCTTTAC-AATCTCTCC
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTT-CAATTAGCCCTT-ACCAATCTCTCC
EST: gi|78112152|gb|DV530548.1|DV530548
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|60340320|gb|DN207293.1|DN207293
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|211192853|gb|FL432744.1|FL432744
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|78118433|gb|DV536819.1|DV536819
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|28986944|gb|CB351386.1|CB351386
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|32809485|gb|CD961719.1|CD961719
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|76931005|gb|DV172591.1|DV172591
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|71427327|gb|DR808377.1|DR808377
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|31352916|gb|CD437273.1|CD437273
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
EST: gi|89251568|gb|DY623354.1|DY623354
EST:     GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAG                         GAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA
genomic: GAATCTGGAGGAATAATGGATTTTGAAGAGGACCGCGTCCGACCAAAAAGgtgataaaat ... gatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattgtgaaaactactcctataatgctgtgttattttgacacactgatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCAGAATGGGACCTGCTGATACCTTGATTGAGACATTTTGACGCCGGAGTTG
                                         cactgat  putative branch site (score: 3)
                            tgttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtcacctgttattaaccctcttcgtccttatagaattgtgttctattgtgaaaactactcctataatgctgtgttattttgacacactgatattgcagGAGGAGGCAACCACCGGCGTAGTTTCAATTAGCCCTTACCAATCTCTCCCAGAATGGGACCTGCTGATACCTTGATTGAGACATTTTGACGCCGGAGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT