Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatatgtatcactgatgctactttatatgtcattattttttcatgtattttttgttgctgaactttgagttgttgtctatttaaatttactgagaagacatatttgcattccaatactgtgtcttgttgcatgctgtttatctaataataaggtgtgtttttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG

Basic information

species Zea mays
transcript GRMZM2G540538_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G540538_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g41590.1 (Oryza sativa), 3'ss of exon 2
gtaagtatatgtatcactgatgctactttatatgtcattattttt-tcatgtattttttgttgctgaactttgagttgttgtctatttaaatttactgagaagacatatttgcattccaatactgtgtcttgttgcatgctgtttatctaataataaggtgtgtttttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
|||||||| | ||| | |    |   |  ||||   ||| |  || | ||| || | ||            ||||  | |  |  ||| ||||            ||| | | |      || | |    |  |  |  ||| | |  |||||||    | | |||  ||  ||||||||| |||||||| |||||| ||||||||||||||||||||||||
gtaagtatttatattagtatcacccttaaatattctattgtcattattatgcatgtgtt------------tgagccgcttccatttttaatt------------atactggtagagttgtagtttcctcttctttaaactgct-acttaataatccactctttttactttgcagGTATGATGAGTTGGCCAGCAAGGGCAATGTTGAATATATTGCCGGAG
















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|18654569|gb|BM499374.1|BM499374
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|9952767|gb|BE639350.1|BE639350
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211299293|gb|FK964182.1|FK964182
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|28361646|gb|CB240002.1|CB240002
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406117|gb|FK964261.1|FK964261
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211538004|gb|FL000878.1|FL000878
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211534999|gb|FL000868.1|FL000868
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|60358287|gb|DN225260.1|DN225260
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295007|gb|FK964152.1|FK964152
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|28931167|gb|CB334528.1|CB334528
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211297153|gb|FK964172.1|FK964172
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211299292|gb|FK964181.1|FK964181
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211297154|gb|FK964173.1|FK964173
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGA-
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211301432|gb|FK964199.1|FK964199
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18654717|gb|BM499522.1|BM499522
EST:     GCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTATGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTA-GCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211538003|gb|FL000877.1|FL000877
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGA-
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|60355538|gb|DN222511.1|DN222511
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211292867|gb|FK964139.1|FK964139
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18649011|gb|BM497830.1|BM497830
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|30031919|gb|CB833770.1|CB833770
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406124|gb|FK964268.1|FK964268
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295014|gb|FK964159.1|FK964159
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403574|gb|FK964250.1|FK964250
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTKGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403570|gb|FK964246.1|FK964246
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|30087102|gb|CB885310.1|CB885310
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|5555550|gb|AI881501.1|AI881501
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211303575|gb|FK964215.1|FK964215
EST:     GACATCAAGCTGAACAATGCKATTCTCGCTGAGGAGAAGCWCTTGCCTAT                         NNN-GACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|19351360|gb|BM895892.1|BM895892
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGACTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18649868|gb|BM498687.1|BM498687
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211401016|gb|FK964225.1|FK964225
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211535006|gb|FL000875.1|FL000875
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211301430|gb|FK964197.1|FK964197
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|29543823|gb|CB604203.1|CB604203
EST:     AATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: AATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211411224|gb|FK964285.1|FK964285
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18649867|gb|BM498686.1|BM498686
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|26557766|gb|CA830001.1|CA830001
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGCTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403564|gb|FK964240.1|FK964240
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211408681|gb|FK964276.1|FK964276
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGA-
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211408686|gb|FK964281.1|FK964281
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18384280|gb|BM417479.1|BM417479
EST:     GACATCCAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|20811213|gb|BQ295691.1|BQ295691
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403575|gb|FK964251.1|FK964251
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211301429|gb|FK964196.1|FK964196
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18654570|gb|BM499375.1|BM499375
EST:     AGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: AGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|13557954|gb|BG549310.1|BG549310
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18654716|gb|BM499521.1|BM499521
EST:     ATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: ATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|19436637|gb|BM953047.1|BM953047
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295005|gb|FK964150.1|FK964150
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211303579|gb|FK964219.1|FK964219
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406116|gb|FK964260.1|FK964260
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|26456972|gb|CA828555.1|CA828555
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211408679|gb|FK964274.1|FK964274
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211299298|gb|FK964187.1|FK964187
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211301441|gb|FK964208.1|FK964208
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|24773803|gb|CA409057.1|CA409057
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211401021|gb|FK964230.1|FK964230
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|28361834|gb|CB240190.1|CB240190
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|8367104|gb|BE050049.1|BE050049
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403569|gb|FK964245.1|FK964245
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|40335337|gb|CK369407.1|CK369407
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211403566|gb|FK964242.1|FK964242
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295016|gb|FK964161.1|FK964161
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295008|gb|FK964153.1|FK964153
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTT-GAATATATTGCCGGAG
EST: gi|211303574|gb|FK964214.1|FK964214
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|18384281|gb|BM417480.1|BM417480
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211299303|gb|FK964192.1|FK964192
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|24961588|gb|CA483591.1|CA483591
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406111|gb|FK964255.1|FK964255
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406113|gb|FK964257.1|FK964257
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211406118|gb|FK964262.1|FK964262
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|13562186|gb|BG550406.1|BG550406
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGTTATGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211295004|gb|FK964149.1|FK964149
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAGGAGC
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAGGAGC
EST: gi|9953243|gb|BE639826.1|BE639826
EST:     GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
EST: gi|211535002|gb|FL000871.1|FL000871
EST:     GACATCAAGCTGAACAATGCCATTCTCGCTGAGGAGAAGCACTTGCCTAT                         GTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGA-
genomic: GACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 985

GTATGACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 1309

GTATGACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1430

GTATGACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 1828

GTATGACATCAAGCTGAACAATGCTATTCTCGCTGAGGAGAAGCACTTGCCTATgtaagtatat ... tttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgtgtcttgttgcatgctgtttatctaataataaggtgtgtttttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG
                         atctaat  putative branch site (score: 1828)
                                         tgttttttt  putative PPT
                    tgtttatctaataata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatatgtatcactgatgctactttatatgtcattattttttcatgtattttttgttgctgaactttgagttgttgtctatttaaatttactgagaagacatatttgcattccaatactgtgtcttgttgcatgctgtttatctaataataaggtgtgtttttttgacagGTATGACGAGTTGGCTAGCAAGAGCAATGTTGAATATATTGCCGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA