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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacccgccctaaaccctagcgtactcttcgaactcgcccccgtctcgattcgcttcgatctatgcgctgattctgattgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC

Basic information

species Zea mays
transcript GRMZM2G100620_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100620_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g15700.1 (Oryza sativa), 3'ss of exon 1
gtaacccgccctaaaccctagcgtactcttcgaactcgcccccgtctcgattcgcttcgatctat-gcgctgattctgattg--tttgt----agCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC
|||   |  || |  | |||     ||     | ||  |  |   ||||||||| || | ||  | ||||| || | | | |  || ||    ||||| ||||||||||||||||||||||||||||||||||||||||||||||| || |||||||| |||||| ||||||||||||||||||||||||| |||
gtactgcctcccacccgctaaaaccct-----agctttcttcttcctcgattcggtttgctccctcgcgctaatcccgctcgatttcgtgtccagCTACGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTGGCTCACACGCAGGGGAAGCGGCACCAGACCAACCTCGCCAAGCGTGCC

upper sequence: GRMZM2G100620_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0007g04710.t01 (Vitis vinifera), 3'ss of exon 1
------gtaacccgccctaaaccc-tagcgtactcttcgaa-ctcgcc--cccgtctcgattcgcttcgatctatgcgctgatt--ctgattgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC
       ||||||    || |       | | || || | | |||||       | |   ||   |  ||| |      |   |   ||     ||  ||||||||||| ||||| ||||||||  |||||||||||||||| || ||  | |||||||| |||||||||||||| ||||| ||  | |||||| | || 
cagaaaataaccctatatatatatactccattctatttggatctcgctattttattttatttttttgtgattttatttttatgtgattgggcaattacagCTATGAGTGTAAGCTTTGCCTGACATTGCACAACAACGAGGGCAATTATTTGGCCCACACACAAGGGAAGAGGCATCAGACGAATTTGGCCAAGAGAGCT

upper sequence: GRMZM2G100620_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ15163 (Selaginella moellendorffii), 3'ss of exon 1
gtaacccgccctaaaccctagcgtactcttcga----actcgcccccgt----ctcgattcgcttcgatctatg-cgctga--ttctgattgttt--gtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC
    |   | ||    | |    | ||||| ||    | |  || | ||    |||||       |||   ||| |  |||  |||   | ||||  | ||||| ||||| ||||| ||| |||||||||||||||| ||||| |||||| | || ||||||||||| ||| | |||||||| ||  | ||||||||||| 
--gtctgtctctctttcatttttttctcttggaggagaatgtccgctgtttttctcgagattgggcgagtgatggcattgaaattcctttggttttggcagCTACGAGTGTAAGCTTTGCTTGACGCTGCACAACAATGAGGGAAACTACTTGGCACACACGCAAGGCAAGCGCCACCAGACGAATTTGGCCAAGCGCGCG

upper sequence: GRMZM2G100620_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ08420 (Selaginella moellendorffii), 3'ss of exon 1
gtaacccgccctaaaccctagcgtactcttcga----actcgcccccgt----ctcgattcgcttcgatctatg-cgctga--ttctgattgttt--gtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC
|||   | | ||    | |    | ||||| ||    | |  || | ||    |||||       |||   ||| |  |||  |||   | ||||  | ||||| ||||| ||||| ||| |||||||||||||||| |||||||||||| | || ||||||||||| ||| | |||||||| ||  | ||||||||||| 
gtatgtctctct--ttcatgtttttctcttggaggagaatgtccgctgtttttctcgagattgggcgagtgatggcattgaaattcctttggttttggcagCTACGAGTGTAAGCTTTGCTTGACGCTGCACAACAATGAGGGGAACTACTTGGCACACACGCAAGGCAAGCGACACCAGACGAATTTGGCCAAGCGCGCG

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|211400055|gb|FL136245.1|FL136245
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|78111551|gb|DV529948.1|DV529948
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211397253|gb|FL247604.1|FL247604
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211460799|gb|FL247625.1|FL247625
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|19351244|gb|BM895776.1|BM895776
EST:     ATGCGCAACCACCT-GGC-G                         CT-TGAG-GCAAGCTG-GCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|149014483|gb|EE044106.2|EE044106
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|19272503|gb|BM888759.1|BM888759
EST:     ATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211253650|gb|FL136113.1|FL136113
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211397250|gb|FL247601.1|FL247601
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211458287|gb|FL247622.1|FL247622
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|91056062|gb|EB166480.1|EB166480
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|18648819|gb|BM497638.1|BM497638
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211402590|gb|FL136247.1|FL136247
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|148944813|gb|EC889958.2|EC889958
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|78092801|gb|DV521175.1|DV521175
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211460800|gb|FL247626.1|FL247626
EST:     ACCATCGACCTCGCCAAGSATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|78077143|gb|DV505577.1|DV505577
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|148937013|gb|EC881184.2|EC881184
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|18649401|gb|BM498220.1|BM498220
EST:     ACCATCGACCTCGCC-AGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211402592|gb|FL136249.1|FL136249
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|149111002|gb|EE294501.2|EE294501
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|37417746|gb|CF646533.1|CF646533
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|50330974|gb|CO526100.1|CO526100
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|78113433|gb|DV531825.1|DV531825
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|32863198|gb|CF002880.1|CF002880
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGC--TGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|149081122|gb|EE170228.2|EE170228
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211458278|gb|FL247613.1|FL247613
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211402594|gb|FL136251.1|FL136251
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|32796147|gb|CD948383.1|CD948383
EST:     GATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCC
genomic: GATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211400054|gb|FL136244.1|FL136244
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211400053|gb|FL136243.1|FL136243
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211402593|gb|FL136250.1|FL136250
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211460801|gb|FL247627.1|FL247627
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|211402591|gb|FL136248.1|FL136248
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
EST: gi|18648881|gb|BM497700.1|BM497700
EST:     ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAG                         CTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT
genomic: ACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCT

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: 206

AGAATGAGGCTATTGACCGGCGGGAGCGTCTCCGCCGCCTGGCCCTCGAGACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 97

AGAATGAGGCTATTGACCGGCGGGAGCGTCTCCGCCGCCTGGCCCTCGAGACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 138

AGAATGAGGCTATTGACCGGCGGGAGCGTCTCCGCCGCCTGGCCCTCGAGACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 107

AGAATGAGGCTATTGACCGGCGGGAGCGTCTCCGCCGCCTGGCCCTCGAGACCATCGACCTCGCCAAGGATCCCTATTTCATGCGCAACCACCTCGGCAGgtaacccgcc ... ttgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcgcccccgtctcgattcgcttcgatctatgcgctgattctgattgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC
                                       ttctgat  putative branch site (score: 107)
                                            attgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacccgccctaaaccctagcgtactcttcgaactcgcccccgtctcgattcgcttcgatctatgcgctgattctgattgtttgtagCTATGAGTGCAAGCTGTGCCTGACGCTGCACAACAACGAGGGGAACTACCTAGCCCACACGCAAGGGAAGAGGCACCAGACCAACCTCGCCAAGCGCGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG