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

CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg...

Basic information

species Zea mays
transcript GRMZM2G181359_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g54340.1 (Oryza sativa), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctctgatctcgtgg-atctaggg---ttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg--
  || ||  ||||||||||||||||||||| || || || |||||||||||||| ||||||||||||||||||||||||||||| |||||||| ||||| ||| ||| |    ||| || |  |||||| |||||||| |   ||||||||    | | ||||||| | ||     ||| |||||  ||  | | | |        
GCGGCGGGGAGCCATGGCGCCGGAGCCGGAAGACGACATCATGAACGAGAAGAACCCCCGCCCGCTCGACGAGGACGACATCGCTCTCCTCAAGACCTACgtgagtgtc----cccccgct-agatctccctgatctcttcccatctaggggtgctttctggtgatctggtcccatggt-gggctcgggcctcgggctggggttag

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattgg--ggtagggcttaggagttgtgttccctcg
   ||  | |   |||||  | || |  || || ||| | | | | ||||||||||||||||| ||||||||||| |||||||| || ||||||||||||||  ||    | |||  |   |   | |   |    |     |  |||||||  ||        | | || |     ||  |||   | | | ||||  |  
ATCGATCAAATAAATGGCTACTGAACATGAAGACGATTTCAAGGATGAGAAGAATCCCCGCCCCCTCGACGAGGATGACATCGCCCTTCTCAAAACCTATgtatgtatg-caaccaacacatctcttttcattccattaccaaattagggtttcttttcaccactcttttagctatcagctcttgtaattggggttctgtt-

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 1
CAGGAGGACAGCCA-TGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattggggtagggctt---aggagttgtgttccctcg----
    |  |  |||| ||||    || |  || || ||| | |   |||||||||| || || || ||||||||||| |||||||| |||||||||||||| ||   ||| |   ||  | |  | | | |  | || || |  ||      || || | | |         |   | ||   |   |||| || | |  |  |     
-GAAATAATCGCCAATGGCAATTGAACACGAAGACGATCTCAAAGACGAGAAGAACCCTCGACCCCTCGACGAGGATGACATCGCCCTCCTCAAAACCTACgta--tgcttt--cctccctccgaaaccc--taatttccta-attcctcttttttggtttaggccaagcagatcttggttcttgcaggaattatatctctacttgtg

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA03G42370.3 (Glycine max), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctc---------tctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
    |  | |   |||||  | || |  || || ||| | | | | ||||||||||||||||| ||||||||||| |||||||| || ||||||||||||||  ||  |    |  || ||    |  |         | |  | ||     ||||   ||   |      | || |||    || |   | |  ||| |||| |    
----ATCAAATAAATGGCAACTGAACATGAAGACGATTTCAAGGATGAGAAGAATCCCCGCCCCCTCGACGAGGATGACATCGCCCTTCTCAAAACCTATGTATgtatcctccctttcattccattaccaaattagggtttcttttcaccactctattattggctttcagctctgaatta---tatgtaattgaggttctgttgctg--

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcg--tgcctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg----
 |      || | ||||||   || |  || || ||| | |   |||||||||| || || || ||||||||||| |||||||| |||||||| ||||| ||  |  | ||||   |         |  |  || || ||     |||  |||| ||||   |     | ||||  |     ||| || |  | ||   |      
GAAAGAATCATCAATGGCGATTGAACACGAAGACGATCTCAAAGACGAGAAGAACCCTCGACCTCTCGACGAGGATGACATCGCCCTCCTCAAGACCTACgtatgctttcctctctctaaaaccctaatttcctaatttcccttttct--ggttttttgccaagcagatcttggttt----tttaagaatcttattttttttactt

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA03G42370.1 (Glycine max), 5'ss of exon 1
--CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctc---------tctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
  ||     | |   |||||  | || |  || || ||| | | | | ||||||||||||||||| ||||||||||| |||||||| || ||||||||||||||  ||  |    |  || ||    |  |         | |  | ||     ||||   ||   |      | || |||    || |   | |  ||| ||||      
ATCAATCAAATAA--ATGGCAACTGAACATGAAGACGATTTCAAGGATGAGAAGAATCCCCGCCCCCTCGACGAGGATGACATCGCCCTTCTCAAAACCTATgtatgtatcctccctttcattccattaccaaattagggtttcttttcaccactctattattggctttcagctctgaatta---tatgtaattgaggttctgtt------

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S152_13V6.2 (Physcomitrella patens), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgc--ctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
| |     |   ||    | ||||    |  || ||| || | || |||||||| || | ||||||||| ||||| |||||||| || ||||||||||||||| ||||   |     || |    || |||  || ||  ||| ||   |  |||  | |   ||  |  | |   | |    |  | ||| |  ||    |
CCGAGCTCCGCGCAGCATGGCGGACATCGCCGACGATCTTCTCAAGGAGAAGAACCCGCCCCCGCTCGATGAGGATGACATCGCACTGCTCAAAACCTATgtgagtgcgcttttggtcttgacgcgagctccgtg-tcgtgtg-atgccgttttcgatcggtcttgggcgtggaatttgtatctctgcgtttttgtcttctg

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 5'ss of exon 1
CAGGAGGACAGC-CATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccct--cgtttggatctctctg----atct--cgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
    ||  | || ||    | ||||    |  || ||| |  | || |||||||| ||   |||||||||||||||||||||||| || ||||||||||||||  |||||     |||  | ||| |   | | ||    || |  ||   || | |       | | ||   | || || ||    | |   || | ||||       
-TCCAGCTCTGCGCACCATGGCGGACATTGCCGACGATCTACTCAAGGAGAAGAACCCGGCCCCGCTCGACGAGGACGACATCGCCCTTCTCAAAACCTATgtaagtgcccatgtccttccttttcgcagtttttgcgtcatttgccgcaaatttggacccgcctcgagaacatttagtgcggcctcgatgtagaat-gtgt-------

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ13722 (Selaginella moellendorffii), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctct-gatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
       |  ||    ||| | ||    || ||||| ||  | || || ||||||||||  |||||||||||||||||||||||||| ||||| || |||||  |   |  | |  |  || |  |||  || | ||| |||  |     | | |  | ||  ||| ||                                
TCACGCCATGGCGCCAGCGGCAGACGTCGACGATGACATCCTCAAGGAAAAGAATCCCCCGCCGCTCGACGAGGACGACATCGCGCTACTCAAGACTTATgtaagattcgtggctttt-ttcgtttctagctcgttcttgtgtgt-----gatttgcgctgcgtttctag-------------------------------

upper sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 1
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctct-gatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg
       |  ||    ||| | ||    || ||||||||  | || || ||||||||||  |||||||||||||||||||||||||| ||||| || |||||  |   |  | |  |  || |  |||  || | ||| |||  |     | | |  | ||  ||| ||                                
TCACGCCATGGCGCCAGCGGCAGACATCGACGATGATATCCTCAAGGAAAAGAATCCCCCGCCGCTCGACGAGGACGACATCGCGCTGCTCAAGACTTATgtaagattcgtggctttt-ttcgtttctagctcgttcttgtgtgt-----gatttgcgctgcgtttctag-------------------------------

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|31998161|gb|CD661959.1|CD661959
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148939474|gb|EC884049.2|EC884049
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|32909117|gb|CF013929.1|CF013929
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148986522|gb|EE030276.2|EE030276
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148941059|gb|EC885918.2|EC885918
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|28987578|gb|CB351704.1|CB351704
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148940274|gb|EC885053.2|EC885053
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|211087536|gb|FL161883.1|FL161883
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149102256|gb|EE287643.2|EE287643
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148940455|gb|EC885254.2|EC885254
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148981623|gb|EE027766.2|EE027766
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|26457221|gb|CA828804.1|CA828804
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149078548|gb|EE167330.2|EE167330
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|211087533|gb|FL161880.1|FL161880
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|211087537|gb|FL161884.1|FL161884
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148933068|gb|EE285985.2|EE285985
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|67042393|gb|CO468648.1|CO468648
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149004352|gb|EE039050.2|EE039050
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148933233|gb|EC876884.2|EC876884
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148943018|gb|EC888066.2|EC888066
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148952264|gb|EC898073.2|EC898073
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|60401248|gb|DN234055.1|DN234055
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149077295|gb|EE165971.2|EE165971
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|211087539|gb|FL161886.1|FL161886
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGNGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAA
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGG-GCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAA
EST: gi|21390185|gb|BQ528234.1|BQ528234
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGTTATGGAGATCATG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|148968071|gb|EE019406.2|EE019406
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149040621|gb|EE046862.2|EE046862
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|149107887|gb|EE292247.2|EE292247
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
EST: gi|211087532|gb|FL161879.1|FL161879
EST:     AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTAT                         GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG
genomic: AGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAG

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: 635

CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 411

CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 217

CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 489

CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcct ... gctgctgcagGGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGGAGGACAGCCATGGCGCCGGAGCCGGAGGATGATATTATGAACGAGAAGAATCCCCGCCCGCTCGACGAGGACGACATCGCGCTCCTCAAAACCTATgtgcgtgcctcgaccctcgtttggatctctctgatctcgtggatctagggttctttggtgattttgtattggggtagggcttaggagttgtgttccctcg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttccctc