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

...aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattatattcttatttggtaattgatctctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT

Basic information

species Oryza sativa
transcript LOC_Os02g21970.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G038126_T01 (Zea mays), 3'ss of exon 4
----aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattatattcttatttggtaattgatctctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
    ||||| | | ||    |||  | |  |   | ||  | || | |  | |    |||||| |  | | || ||        ||     |||   | | |||||||| ||||| ||||||||| ||||||| ||||||||||||||||| |||||||||||||| ||||| || ||||||||||||
ttacaattc-tgttttacaaattcctttgtcaattcaagctgtttggttttgg---ttttctgtgtctctctttttcacactcgatgctcatctaattcttcagGTCTGCACTGCCAAAATGAACCTGAGTGACGAGGTTGATTTGGAAGACTATGTTTCCAGACCGGATAAGATCAGTGCTGCTGAT

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G090904_T01 (Zea mays), 3'ss of exon 4
aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattatattcttatttggtaattgatctctctatttc--cagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
  ||| | |||  |     | | |      ||   || | |||||||||||  |   | |  |  | ||   | ||| |||||    | |||| |||  ||||| || ||||| ||||||||| |||| ||||||||||||||||||||||||||||||||||| ||||| || ||||||||||||
-tttcgtttgtcaactcaatctgtttggtttggttttctgggttgctagattttgcgtcatctcttcttac-acttgataattagcttgtctaattcttcagGTTTGCACTGCCAAAATGAACCTGAGCGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCGGATAAGATCAGTGCTGCTGAT

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA18G05730.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctg-agattatattc--ttatttggtaattgatctctctat--ttc---cagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                                                      |   || |   | || |||  | | ||  | |   | ||   || |  |   |||  | || |||| |||   |  ||| |||   ||   |  ||  ||    ||||| || || || ||||||||||||||||||||||| ||  | || |||||||||||  | || || ||||| ||||||||||| 
ggcaagtcttttggctattttatttggtttactggacatcttatattctgagtgacaaatttcggtttgttttgaagaccttttcagtgtcttttatgttgaaaaatttaagtagtttattttcagctgattgctaacctattgtttgatggtttgatcaGGTTTGCACAGCCAAAATGAACTTGAGTGATGAGGTAGACCTAGAGGATTATGTTTCTCGTCCTGACAAAATCAGTGCTGCTGAG

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA11G31470.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattatattcttatttggtaattgatctctctat--ttc---cagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                                                         | |      |||  | || || |  ||||   | |   |  |   | ||     | ||   || |||| | || || ||  | | ||||  ||  ||    ||||| || || || || |||||||||||||||||||| ||| |||| |||||||||||  | || || ||||| ||||||||||| 
gcaagtcttatgggttttctatatgattcactggaaattttatattctgactttctgagtggcaaattttcgcttgtt-ttgctgactcagtgccttttatattgaaaaaatttgtagtt-tattttcatctgctagctaacctcttgatggtttgatcagGTTTGCACAGCCAAGATGAACTTGAGTGATGAGGTAGATCTGGAGGATTATGTTTCTCGCCCTGACAAAATCAGTGCTGCTGAG

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA11G31450.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------------aattcatctgtttatgatttt--tataactgatgaaattat--tggttgctagat----cctttctgagattatattcttatttggtaattgatctctc------tatttc---cagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                                                                         |||| |  || | | ||||   | |   |     | |||   ||| |  || ||    | |||   | | | |||| | |  || |   | | || |       | |||    ||||| || || || || |||||||||||||||||||| ||  |||| |||||||||||  | || || ||||| ||||||||||| 
gcaagtcttatggctattttatatgctttattttcatattttgtcagtattccatgtttattgaacattttgtattc-tgagtctctaatttcagtttggtttgcagacttacaatggcttttatattgaacattttaaatagtttattttcagctgcttgctaacctattatttgatgttttgatcagGTTTGCACAGCCAAGATGAACTTGAGTGATGAGGTAGACCTGGAGGATTATGTTTCTCGTCCCGACAAAATCAGTGCTGCTGAG

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT5G58290.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattata--ttcttatttggtaattgatctctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                        || | |   ||| | ||  | |  |||  |     || |     |  |  |  |  |||| ||  ||  ||||   ||  | |||| | | ||  | |  |||| || ||  | ||||||||| | || ||||||||||| |||||||| ||||||||  | || ||||||||||| |||||||| 
gtaagttaattactacaagcacttaaataactagttaaagagatatgaaaccaaatgttttctcaaaaga-aagttttgactgatatcttagtttctgtcttattgattggtttttccttgtgtagGTATGCACCTCCAAAATGAACCTTAGCGATGAGGTTGACTTGGAAGACTATGTTTCACGGCCTGATAAAATTAGCGCTGCTGAG

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv06s0004g08220.t01 (Vitis vinifera), 3'ss of exon 4
aattcatctgtttatgatttttataactgatgaaattattgg-ttgctagatcctttctgagattatat-tcttatttggtaattgatct-ctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
 |   |  | ||  |  ||| || |  |  | |   | ||||  | | ||    ||   || |||| || | || |   ||  |  || | | || |||  |||| || |||||||| |||||||| || ||||||||||| ||||| || ||||||||  | ||||||||||||||||||||||| 
-acgtacttcttcct--tttctacaggttttcagtgttttggacttccagtagtttatggaaattaaatgtgttttgaagtggtctattttccctttttatagGTTTGCACTGCTAAGATGAACTTAAGCGATGAGGTTGACTTGGAGGACTATGTTTCTCGGCCAGATAAAATTAGTGCTGCTGAG

upper sequence: LOC_Os02g21970.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S147_100V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------aattcatctgtttatgatttttataactga--tgaaattattggttgctagatcctttctgagattatattcttatttggtaat---tgatctctctatttc--cagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                            | ||| |  ||||  || |  || |  ||   |      || | |   | |   || | |  || |   |  |  ||    |||   ||  ||    |||    ||||| |||||||| || |||||  | || || ||||||||||| ||||| |||||||| || || |||||||| ||||||||||| 
gtatgaatccttcttgctcaggcttgtgatttcgttcgtttcagaatcctacaggtgcgttttggaaatcgatgcgtggcatctcttttggacttcgtcgtggttaatgaatgtgtggactgagaattcgaacagGTATGTACTGCAAAGATGAATCTAAGCGAGGAGGTTGATTTAGAAGACTATGTTTCTAGGCCTGATAAAATAAGTGCTGCTGAG

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|88988222|gb|CI036192.1|CI036192
EST:     AGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88247517|gb|CI247366.1|CI247366
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88993480|gb|CI110301.1|CI110301
EST:     CAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: CAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89194535|gb|CI116972.1|CI116972
EST:     TCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: TCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88221562|gb|CI221518.1|CI221518
EST:     GATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: GATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29659074|gb|CB655349.1|CB655349
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|11564715|gb|AU165351.1|AU165351
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|87035104|gb|CI189727.1|CI189727
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86501980|gb|CI144613.1|CI144613
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88221302|gb|CI221258.1|CI221258
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29624229|gb|CB629240.1|CB629240
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|87033424|gb|CI188048.1|CI188048
EST:     TTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: TTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86503025|gb|CI145658.1|CI145658
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29656424|gb|CB652699.1|CB652699
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86505292|gb|CI147925.1|CI147925
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88843994|gb|CI008575.1|CI008575
EST:     GGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: GGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29683628|gb|CB679903.1|CB679903
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|25798027|gb|CA753988.1|CA753988
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89184394|gb|CI046959.1|CI046959
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89190189|gb|CI392239.1|CI392239
EST:     TCGGCACAAGAGGC-TGTTTTCCAA                         GTCT-TACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: TCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86538182|gb|CI178388.1|CI178388
EST:     CCAGATCGTCGTCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: CCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29636555|gb|CB641564.1|CB641564
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86859555|gb|CI278928.1|CI278928
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89177204|gb|CI043707.1|CI043707
EST:     TTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: TTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29624228|gb|CB629239.1|CB629239
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88221274|gb|CI221230.1|CI221230
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86836316|gb|CI348258.1|CI348258
EST:     AAGAGGCTTCTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGCTTGATTTGGAAGATTAT
genomic: AAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86601860|gb|CI258536.1|CI258536
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89183380|gb|CI045945.1|CI045945
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86832828|gb|CI332434.1|CI332434
EST:     GGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: GGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86413612|gb|CI019197.1|CI019197
EST:     CGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAGATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: CGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86495973|gb|CI138606.1|CI138606
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29628786|gb|CB633797.1|CB633797
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86503152|gb|CI145785.1|CI145785
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86427789|gb|CI072886.1|CI072886
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88227444|gb|CI226924.1|CI226924
EST:     AGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|29624299|gb|CB629310.1|CB629310
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|89168795|gb|CI020876.1|CI020876
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|88248544|gb|CI248393.1|CI248393
EST:     AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: AAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
EST: gi|86432093|gb|CI085704.1|CI085704
EST:     TCGTCGGCAGAAGAGGCTTGTTTTCCAA                         GTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT
genomic: TCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTAT

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 1 RNA-Seqlibrary.


Block sizes: 50 (upstream exon), 74 (downstream exon)
Score: 70

GGCGGATACCCTAGACCCTGCTCTGTTACGTCCAGGTAGATTGGACAGGAAAATCGAGTTCCCTCTTCCAGATCGTCGGCAGAAGAGGCTTGTTTTCCAAgtaagttttg ... ctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagatcctttctgagattatattcttatttggtaattgatctctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT
                                  aattgat  putative branch site (score: 70)
                                        tctctctatttcc  CT-rich tract
                attatattcttatttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattcatctgtttatgatttttataactgatgaaattattggttgctagatcctttctgagattatattcttatttggtaattgatctctctatttccagGTCTGTACTGCTAAAATGAACTTGAGTGATGAGGTTGATTTGGAAGATTATGTTTCCAGACCAGATAAAATTAGTGCTGCTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - catctgt
- - - - - -ttatgat
- - - - - - - - - - - - - ctgatga
- - - - - - - - - - - - - - - - - - - -tggttgc