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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGTTGAACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcattaacagtagtttgaggctttgagcataattgaagtttcctttattccacttcagtgtttcttgatcgaactgatgttatccttttgactttacag

Basic information

species Zea mays
transcript GRMZM2G079256_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079256_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 5'ss of exon 4
GCGTTGAACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcattaacagtagtttgaggctttgagcataattgaagtttcctttattccacttcagtgtttcttgatcgaactgatgttatccttttgactttacag--------------
|| ||||||||||||||||||||||||| ||||| |||||||| |||||||| ||||| || | ||| ||| || || || || | |||| | || |||| ||||||||| | || | ||| | | ||| || | |
GCACTGAACATATTTGAGACAAGCTTGAGGCGTGGGAAGTTTGACGAATCACGAAAgtgtgttc-ctaagtgtacttgcagt---------tatttaatgttttgtgtagtccatttcagtgttccatgctggaatgattatcatctccatggtgtctgactacctttgttgcag

upper sequence: GRMZM2G079256_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 4
GCGTTGAACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat-taacagtagtttgaggctttgagcataattgaagtttcctttattccacttcagtgtttcttgatcgaactgatgttatccttttgactttacag
|| | || ||||||||||||||||||||||||||||| || || | ||||| || || | | |||| | ||| || |||| | | || ||| ||||| || | | |
GCACTTAATATATTTGAGACAAGCTTGAGACGTGGAAAATTCGACCAGTCACGAGTgtaaggacttacaacatgatcttgtctggttttatgtaatgggacattaattt-ttccatccatgtatattcag--------------------------------
















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|211312412|gb|FL116820.1|FL116820
EST:     A-CATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCCTATGG
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGG
EST: gi|60345537|gb|DN212510.1|DN212510
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211312423|gb|FL116831.1|FL116831
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|31356068|gb|CD440425.1|CD440425
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|32865280|gb|CF004962.1|CF004962
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|21987661|gb|BQ779189.1|BQ779189
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCA
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCA
EST: gi|32907240|gb|CF012053.1|CF012053
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|78076466|gb|DV504900.1|DV504900
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211312417|gb|FL116825.1|FL116825
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGA
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGA
EST: gi|211314440|gb|FL116834.1|FL116834
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGA
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGA
EST: gi|32908286|gb|CF013099.1|CF013099
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|67011703|gb|CO440452.1|CO440452
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|87156317|gb|DY401106.1|DY401106
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211314439|gb|FL116833.1|FL116833
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGNTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAA
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAA
EST: gi|32911684|gb|CF016496.1|CF016496
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGTACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|71332949|gb|DR803501.1|DR803501
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211314448|gb|FL116842.1|FL116842
EST:     ACATATTTGAGACAAGCTTGAGACGTGAAAAAGTT-GATGA-TCACGGAA                         GCTACCTGATGGATCTCCTATGGAGATTGC
genomic: ACATATTTGAGACAAGCTTGAGACGTGGAAA-GTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGC
EST: gi|211312419|gb|FL116827.1|FL116827
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCC
EST: gi|211314447|gb|FL116841.1|FL116841
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCCTTATGGAGATTGCTAAAGTATATCCACTGGGAC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTC-TTATGGAGATTGCTAAAGTATATCCACTGG-AC
EST: gi|211312418|gb|FL116826.1|FL116826
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGAC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGAC
EST: gi|211314443|gb|FL116837.1|FL116837
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|22819573|gb|BU499663.1|BU499663
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211314444|gb|FL116838.1|FL116838
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTAT
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTAT
EST: gi|211312415|gb|FL116823.1|FL116823
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|26559923|gb|CA832158.1|CA832158
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211310397|gb|FL116818.1|FL116818
EST:     AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAA                         GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGC
EST: gi|211314445|gb|FL116839.1|FL116839
EST:     AACATATTTGA-ACCAGCTTGAGACGTGAAAAGTTTGATGAATCACG-AA                         GCTACCTGATGGATCTCTAATGGAGATGGCTAAAGTATATCCACTGGGAC-
genomic: AACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcat ... gactttacagGCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGG-ACG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCGTTGAACATATTTGAGACAAGCTTGAGACGTGGAAAGTTTGATGAATCACGGAAgtgagtgcattaacagtagtttgaggctttgagcataattgaagtttcctttattccacttcagtgtttcttgatcgaactgatgttatccttttgactttacag

- - - - - - - - - CAAGCT