Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatttatttgccctcccaatatcagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcgtgctaagtgctcactgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT

Basic information

species Zea mays
transcript GRMZM2G059991_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g25850.1 (Oryza sativa), 3'ss of exon 5
aatttatttgccctcc-caatat-cagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcg-tgctaagtgctcactgctttct-tggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGA-ATTGTCT
  ||||    |   |  ||   | ||    ||| ||  | |||  || |  || ||    ||||| | | | |    |||  ||| || ||||  |||||||||||||||||||| ||||| || ||||||| |||||||||||||||||||||||||||||| || || ||||||||||||||||    |||||||  ||||| 
-gtttaacaacttacaacatcgtgcacacccaacttatttgtgcttcgaatttcaac---ctttgctattgctaaacagtcttcattgatttccgtggttgcagTACAAGAATGTCAGGCCAGACTACCTGAGCAACATCTGGAAGGTGATGAACTGGAAATACGCAGGGGAGGTGTACGAAAATGCGACTGCTTGATGTTGTC-

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g25850.2 (Oryza sativa), 3'ss of exon 4
aatttatttgccctcccaatatcagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcgtgctaagtgctcactgctt--tcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATC-TGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT---
    | |  | ||   | |  | ||   ||  |     |||| | ||     || |  |   |  |  || | ||      |||||||  | |||  || ||  |||   |  | |      ||  |  |  |    | ||||   |  |   |   ||| |||  ||     || ||      |  ||||  |  ||||  |   
-gaatgtcaggccagactacctgagcaacatctggaaggtga-tgaactggaaatacgcaggggaggtgtacgaaaatgcgactgcttgatgttgtctgaag-

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G39930.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------aatttatttgccctcccaatatcagtgtca-attttgtcgtgagtcaatcttgaagagacttt-gttgtcgtgctaagtgctcac-------tgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT
                                               |||  ||| ||  |   || |  |    || |        |    || || |  |   || |  ||||||    ||| | || |        || |||  |  |||||||||||||||||||| || || || ||||| ||||| ||||| || || || |||||||||||  | || ||||| || || |      |||    ||   
gtaaaattttgaacttggcgatccattagtgactgcgtggttttggaaataaattggcaataagaaaaggaaacacagaacacaatttcttacattcgtagatgcacatcagttgtcaaaataatttctgatgtatgcttgtttttcttattgcagTACAAGAATGTTAGACCAGACTATCTGAAGAACATTTGGAAAGTTATTAATTGGAAATATGCCAGTGAAGTGTATGAGAAAGAGAGCTCTTAGTCTGAAA

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g07950.t01 (Vitis vinifera), 3'ss of exon 5
--------------aatttatttgccctccca-atatcagtgtcaattttgtcgt-gagtcaatcttgaagagactttgttgtcgtgctaagtgctcactgctt-----------tcttggt--tgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT
              |||||| |         | ||   |  |||   ||     | ||||   |  |  |   | ||| || |  ||  ||   |||     ||            | ||||  |||||||||| ||||| |   | || |||||||| ||||| |||||||| |||||||||||||||||  | ||| |||| || || |    ||| |||       
gtgatttttccaggaatttaatattttggatatatgaaaaagtctgcttcagaattgagttctttatagacttagtttcttcttctgggaaaaactcggaatttgaaatgatcgtccctggtgatgcagTACAAAAATGTAAAAGCTGACTACCTGAAGAACATATGGAAGGTTATGAACTGGAAATATGCAAGTGAGTTGTATGAGAAAGAGAGTGCCTGAGG-----

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 3'ss of exon 5
-aatttatttgccctcccaatatcagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcgtgctaagtgct-cactgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT
 || || |          |   ||  |  | || | |       |    ||||        |   | |  |   | ||| | || |  || |   ||  |||||||||||||| ||||||||||||||||| ||| | ||||| |||||  |||||||||||||  | || ||||| || || |      ||||||      
caaattttcaattacataagattcgttacctatataggtcctgatttcccttgtgtt--tctcaatctgatttcatgtgtttcaatctttcccatgtgacagTACAAGAATGTGAGGCCGGATTACCTGAAGAACGTATGGAAAGTGATAGACTGGAAATATGCCAGTGAAGTGTATGAGAAAGAGTGCCCTTGAACAACAG

upper sequence: GRMZM2G059991_T01 (Zea mays), 3'ss of exon 5
lower sequence: EFJ28961 (Selaginella moellendorffii), 3'ss of exon 5
aatttatttgccctcccaatatcagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcgtgctaagtgctcactgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAA-ATGTTCTTGCTTGAATTGTCT
                                                 |  ||  || || | | ||  ||  |||| |    | ||| ||  || |||||||| ||||| | |||||| ||||| || ||||||||||| ||||| |||||||   | | |         |||||   |  ||  |             
------------------------------------------------gtaaaatcgatttagctttctagc--agtgat----gttttttt--tttcagTACAAAAATGTCAAGCCGGACTACCTCAAGAACATCTGGAAAGTGATCAACTGGAGCGACGTTTCTAGCAGATACGAGGCAAATTTGTAG-----------

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|148960461|gb|EE011056.2|EE011056
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATTTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|211509985|gb|FL212150.1|FL212150
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60342800|gb|DN209773.1|DN209773
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4835039|gb|AI670265.1|AI670265
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|24765654|gb|CA400813.1|CA400813
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|149058839|gb|EE156860.2|EE156860
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60395736|gb|DN228606.1|DN228606
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|71429171|gb|DR810221.1|DR810221
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|21389905|gb|BQ527954.1|BQ527954
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|211507633|gb|FL212146.1|FL212146
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|5686828|gb|AI939742.1|AI939742
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|50337946|gb|CO533072.1|CO533072
EST:     TGGTTCCGCTGTTGGGGATTGATGTTTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATTTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|24764063|gb|CA399232.1|CA399232
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|76933824|gb|DV173600.1|DV173600
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60400370|gb|DN233177.1|DN233177
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|149085021|gb|EE174530.2|EE174530
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|24767245|gb|CA402389.1|CA402389
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|18660326|gb|BM500804.1|BM500804
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|29576842|gb|CB616954.1|CB616954
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60394126|gb|DN226996.1|DN226996
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|31358052|gb|CD442409.1|CD442409
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60346223|gb|DN213196.1|DN213196
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|16919543|gb|BM074241.1|BM074241
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|116820947|gb|EC864215.1|EC864215
EST:     TGGTT-CGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60399935|gb|DN232742.1|DN232742
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|76013538|gb|DT940708.1|DT940708
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|78076311|gb|DV504745.1|DV504745
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|5058804|gb|AI737280.1|AI737280
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|211509987|gb|FL212152.1|FL212152
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACGAGAATGTTAGGCCGGGTTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|5124097|gb|AI745938.1|AI745938
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|76281803|gb|DV021371.1|DV021371
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|16925475|gb|BM078543.1|BM078543
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4630559|gb|AI621433.1|AI621433
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60401116|gb|DN233923.1|DN233923
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|76933825|gb|DV173601.1|DV173601
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTANGCCGGATTACCTGAACAACATCT
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCT
EST: gi|22542675|gb|BU093113.1|BU093113
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4967171|gb|AI692081.1|AI692081
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|31361853|gb|CD446210.1|CD446210
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60400384|gb|DN233191.1|DN233191
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|24765551|gb|CA400710.1|CA400710
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|22818940|gb|BU499030.1|BU499030
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|149085100|gb|EE174607.2|EE174607
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|91871701|gb|EB401658.1|EB401658
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|85152185|gb|DW587647.1|DW587647
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|78087633|gb|DV516026.1|DV516026
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4966517|gb|AI691373.1|AI691373
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60399390|gb|DN232204.1|DN232204
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|31357365|gb|CD441722.1|CD441722
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4837565|gb|AI670655.1|AI670655
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|4887485|gb|AI677584.1|AI677584
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|8665682|gb|BE186498.1|BE186498
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60357925|gb|DN224898.1|DN224898
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|78026618|gb|DV495005.1|DV495005
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|67020859|gb|CO449608.1|CO449608
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTNGA-CAACATCTGGAAGGTGATGAA
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCT-GAACAACATCTGGAAGGTGATGAA
EST: gi|76013539|gb|DT940709.1|DT940709
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|60343978|gb|DN210951.1|DN210951
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTCCCTGCAG                         TACAAGAATGTTAGGCCGGATTCCCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
EST: gi|15589969|gb|BI674585.1|BI674585
EST:     TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAG                         TACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC
genomic: TGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAAC

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), 49 (downstream exon)
Score: 548

GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 708

GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 600

GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 677

GATCCTCTGGTGACTAAAGGTGCAAGCTTGGTTCCGCTGTTGGGGATTGATGTCTGGGAACATGCATACTACCTGCAGgtgatctttg ... ttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttgaagagactttgttgtcgtgctaagtgctcactgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT
                               tgctcac  putative branch site (score: 677)
                                 ctcactgctttctt  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatttatttgccctcccaatatcagtgtcaattttgtcgtgagtcaatcttgaagagactttgttgtcgtgctaagtgctcactgctttcttggttgcagTACAAGAATGTTAGGCCGGATTACCTGAACAACATCTGGAAGGTGATGAACTGGAAATATGCTGGAGAGGTGTACGAAAATGTTCTTGCTTGAATTGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - tgccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcgtgct