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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttcctgtagttcgtaccaaatacccattcacttctgcatttttactcttttgtgcagtgcatcttgatacttacatttcattatttgttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA

Basic information

species Zea mays
transcript GRMZM2G158662_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158662_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g22330.1 (Oryza sativa), 3'ss of exon 1
-ttttttcctgtagttcgtaccaaatacc-cattcacttctgcatttttactcttttgtgcagtgcatcttgatacttacatttcattatttgttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA
 |  |  | |    |||       ||||  ||||   |||    | |  ||| | |  || | |     |    ||||| |       || |||| ||||||| ||||||| |||||||||| ||||||||||||||||||||  | |||||||||||||||||||||||||||||| ||||||| | ||||||||||||||
ttcgtaactttctattcccttttgatacagcattgtgttccat-tatacactatctaatgtattatgcatgctaacttagaaaa-gcaatctgttaatttagGGCTCAAAAGCTGCTGTTGGTTCTACTCTCATTGGTGGTGAAGCTGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTTCAGAATGTTGTATGCAGCCAAACA
















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|40336651|gb|CK370721.1|CK370721
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|76914107|gb|DV165407.1|DV165407
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921447|gb|CF026259.1|CF026259
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGATGAGACAGAAGCC
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|74240099|gb|DT648013.1|DT648013
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32923148|gb|CF027960.1|CF027960
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32920320|gb|CF025132.1|CF025132
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTTATTGGTGGTGAGACCAGAAGC
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGA-CAGAAGC
EST: gi|37393753|gb|CF634142.1|CF634142
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922007|gb|CF026819.1|CF026819
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32923136|gb|CF027948.1|CF027948
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32920266|gb|CF025078.1|CF025078
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32925031|gb|CF029843.1|CF029843
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|71435910|gb|DR816960.1|DR816960
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|149069800|gb|EE158186.2|EE158186
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922306|gb|CF027118.1|CF027118
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACCAGAAGC
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGA-CAGAAGC
EST: gi|149099430|gb|EE185469.2|EE185469
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|94479086|gb|EB708044.1|EB708044
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|78116091|gb|DV534479.1|DV534479
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|50334996|gb|CO530122.1|CO530122
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921224|gb|CF026036.1|CF026036
EST:     CCCCCACGCTTGCTGAGCTCGGGCTCGCTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: -CCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32926218|gb|CF031030.1|CF031030
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32923560|gb|CF028372.1|CF028372
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|76911079|gb|DV164157.1|DV164157
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGGTGGTGAGACAGAAGC
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGG-TGGTGAGACAGAAGC
EST: gi|32921262|gb|CF026074.1|CF026074
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921613|gb|CF026425.1|CF026425
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|76908974|gb|DV163161.1|DV163161
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922206|gb|CF027018.1|CF027018
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921696|gb|CF026508.1|CF026508
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921938|gb|CF026750.1|CF026750
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACCAGAAGC
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGA-CAGAAGC
EST: gi|32926803|gb|CF031615.1|CF031615
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|86473550|gb|DY239920.1|DY239920
EST:     TCCCCACGCTTGCTGAGCTGGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|83278195|gb|DV942203.1|DV942203
EST:     CCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: CCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|149106207|gb|EE291900.2|EE291900
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922666|gb|CF027478.1|CF027478
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32828358|gb|CD968036.1|CD968036
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|50334995|gb|CO530121.1|CO530121
EST:     CAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: CAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32923395|gb|CF028207.1|CF028207
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922653|gb|CF027465.1|CF027465
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32922165|gb|CF026977.1|CF026977
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|71440273|gb|DR821323.1|DR821323
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|71772788|gb|DR970713.1|DR970713
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|6194601|gb|AW146705.1|AW146705
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
EST: gi|32921485|gb|CF026297.1|CF026297
EST:     TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAG                         GACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT
genomic: TCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 122

CGAGGAGGTCAAGTGCGTGCCCATGAAGAATGTGCTCGAGCCCGGTGACATCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 392

CGAGGAGGTCAAGTGCGTGCCCATGAAGAATGTGCTCGAGCCCGGTGACATCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 202

CGAGGAGGTCAAGTGCGTGCCCATGAAGAATGTGCTCGAGCCCGGTGACATCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 260

CGAGGAGGTCAAGTGCGTGCCCATGAAGAATGTGCTCGAGCCCGGTGACATCCCCACGCTTGCTGAGCTCGGGCTCACTGCGCCACCAGCCATGTCACAGgtgagtcggc ... gttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactcttttgtgcagtgcatcttgatacttacatttcattatttgttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA
                          tacttac  putative branch site (score: 260)
                                          tttgttc  putative PPT
                                 atttcattatttgttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttttcctgtagttcgtaccaaatacccattcacttctgcatttttactcttttgtgcagtgcatcttgatacttacatttcattatttgttcatttagGACTCAAAACCTGCTGTTGGCTCTACTCTCATTGGTGGTGAGACAGAAGCTCTGGAGAGGTTGAAGAAGTTTGCTGCAGAATGCTCTATGCAGCCAAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - cattcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttcatt