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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttctcatctctgaatgttcgcaatccttcctgcacactaactggggtgtctttatttccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAAGGTAATGGCACTGAAGGCAACCAGCTTAAGCCTAGGATTGATGATGAAA

Basic information

species Zea mays
transcript GRMZM2G363460_T02
intron # 4
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|78075300|gb|DV503734.1|DV503734
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211325818|gb|FL171524.1|FL171524
EST:     CTGCAGGGCTCTTGCTTGGGTTTGGGGCTAGCGCTGCTGTCTTTATCCAG                         AAACTGTTCCT-CCTAGGCTCAAGTCTTGGATCCG
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCG
EST: gi|148941345|gb|EC886254.2|EC886254
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211332310|gb|FL171558.1|FL171558
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211332312|gb|FL171560.1|FL171560
EST:     CTGCAGGGCTCTTGCTTGGTTTTTGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTC-TAGGCTCAAGT
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGT
EST: gi|149104153|gb|EE289587.2|EE289587
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATG
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATG
EST: gi|211334480|gb|FL171577.1|FL171577
EST:     CTGCAAGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTCCCTTCCTAG
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAG
EST: gi|211330146|gb|FL171546.1|FL171546
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211330150|gb|FL171550.1|FL171550
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|74242480|gb|DT650394.1|DT650394
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211334484|gb|FL171581.1|FL171581
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGAGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTGCTTCCTAGGCTACA-GTCTTGGATCCGCA-TGTTGTAGCAGA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCT-CAAGTCTTGGATCCGCAATGTTGTAGCAGA
EST: gi|211332309|gb|FL171557.1|FL171557
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCC
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCC
EST: gi|211330151|gb|FL171551.1|FL171551
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGGTCCTTCCTAGGGCTCA-GTCTTGGATCCGCAATGTTGTAGCAGA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGG-CTCAAGTCTTGGATCCGCAATGTTGTAGCAGA
EST: gi|149085990|gb|EE175517.2|EE175517
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211334475|gb|FL171572.1|FL171572
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCT
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCT
EST: gi|211330155|gb|FL171555.1|FL171555
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211336641|gb|FL171591.1|FL171591
EST:     TGCAGGGCTCTTGGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCCTAGGCTCA-GTCTTGGATCCGCAATGGTGTA
genomic: TGCAGGGCTCTTG-CTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCC-TAGGCTCAAGTCTTGGATCCGCAATGTTGTA
EST: gi|76912800|gb|DV164886.1|DV164886
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211327981|gb|FL171529.1|FL171529
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGG
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGG
EST: gi|211332314|gb|FL171562.1|FL171562
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|71442954|gb|DR824004.1|DR824004
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|31355282|gb|CD439639.1|CD439639
EST:     CGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCACAATGTTGTAGCAGAA
genomic: CGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211327986|gb|FL171534.1|FL171534
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCCTAG-CTCAAGTCTTGGATCCGCAATGGTGTANCAGA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCC-TAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGA
EST: gi|211332313|gb|FL171561.1|FL171561
EST:     TGCAGGGCTCTTGCTTGGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTA
genomic: TGCAGGGCTCTTGCTTGG-TTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTA
EST: gi|211334478|gb|FL171575.1|FL171575
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCNAGTCTTGGATCCCGCA-TGTTGTAGCAGA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCC-GCAATGTTGTAGCAGA
EST: gi|211336636|gb|FL171586.1|FL171586
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTC
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTC
EST: gi|148999595|gb|EE036575.2|EE036575
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|91048105|gb|EB158523.1|EB158523
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|71312718|gb|DR792887.1|DR792887
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|76913179|gb|DV165031.1|DV165031
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211330148|gb|FL171548.1|FL171548
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCT
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCT
EST: gi|211330156|gb|FL171556.1|FL171556
EST:     CTGCAGGGCTCTTGCTTGGGTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGGTCCTTCCTAGGCTCAGGTCTTGGATCCGCAATGGTGTAGCAGAA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAA
EST: gi|211334474|gb|FL171571.1|FL171571
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AA-CTGTTCCTTC-TAGGCT
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCT
EST: gi|211336639|gb|FL171589.1|FL171589
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAG                         AAACTGTTCCTT
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTT
EST: gi|211332317|gb|FL171565.1|FL171565
EST:     CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGGTGCTGTCTTTATCAAA                         AAACTGTCCCTTCTTAAGCTCA
genomic: CTGCAGGGCTCTTGCTTGGTTTTGGTGCTAGCGCTGCTGTCTTTATCAAGgtatttctca ... tccatgttagAAACTGTTCCTTCCTAGGCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgttcgcaatccttcctgcacactaactggggtgtctttatttccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAAGGTAATGGCACTGAAGGCAACCAGCTTAAGCCTAGGATTGATGATGAAA
                       cactaac  putative branch site (score: 1)
                                     tctttatttcc  putative PPT
                                     tctttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttctcatctctgaatgttcgcaatccttcctgcacactaactggggtgtctttatttccatgttagAAACTGTTCCTTCCTAGGCTCAAGTCTTGGATCCGCAATGTTGTAGCAGAAGGTAATGGCACTGAAGGCAACCAGCTTAAGCCTAGGATTGATGATGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG