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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG

Basic information

species Zea mays
transcript GRMZM2G038356_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G038356_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g23620.1 (Oryza sativa), 3'ss of exon 1
----------------------------------gtacgccaccgtcccccgtctgct----tccggtatcctatc-ctagatctgcttc-cctgggcttgcctgatccgtgcttgttt---cgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
                                   | | ||||   |||   ||||      |||  |  ||| ||  | |||||| | |  ||| | |||   | | ||||| ||  |   ||   | ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||
gtaccctcctacccttcgcccggatctctctcccctcccccacaaccccagatctgacccgatccatttccctttcgttggatctgatccgtctgtgtttgtgcg-tgcgtgcgtgcgtgggcggatggtgcagAGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGGAAGATCAAGTTCAAGGCCTTCGATCTCGGCGGCCACCAGATCG

upper sequence: GRMZM2G038356_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ12822 (Selaginella moellendorffii), 3'ss of exon 1
gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
                            |     |       || | || |||| ||       |||| | |   | ||    |   |||| |  | || |||||||||||||||||| ||||||| ||||||||||| ||||| ||||||||||||||||| || || || || ||||| ||||||||||
------------------------gtaagcgaatttcttggaatttcctcccctaggtca--tggatctggg---gattgcgcctgcgcagAGACTCGTCCAGCACCAGCCGACGCAGTACCCGACCTCGGAGGAGCTGAGCATAGGCAAGATCAAGTTCAAAGCGTTTGATCTGGGCGGTCACCAGATCG

upper sequence: GRMZM2G038356_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ16976 (Selaginella moellendorffii), 3'ss of exon 1
gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
                            |     |       || | || | || ||       |||| | |   | ||    |   |||| |  | || |||||||||||||||||| ||||||| ||||||||||| ||||||||||||||||||||||| || || ||  | || || ||||||||||
------------------------gtaagcgaatttcttggaatttcctcctctaggtca--tggatctggg---gattgcgcctgcgcagAGACTCGTCCAGCACCAGCCGACGCAGTACCCGACCTCGGAGGAGCTGAGCATCGGCAAGATCAAGTTCAAAGCGTTTGATTTGGGAGGTCACCAGATCG

upper sequence: GRMZM2G038356_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ35155 (Selaginella moellendorffii), 3'ss of exon 1
--------------gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcg--atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
              |    ||   |  | || ||   ||| |    |   ||        |||    |||  ||   |  |   | ||| | |||  ||  || ||| | ||||| ||||||||||| || ||| | || || || |||||||| ||||||  ||||||||| |||||||||||||| || || || ||||||||||
gtgagtggtttccagcttaccctagagctccatcgcgttctgaggccgcctctctcgcgcgctcttttggttttttttctttttttcttttctcgcaattcttccagAGATTGGTACAGCACCAGCCCACCCAGTATCCAACATCCGAGGAGCTAAGCATCAACAAGATCAAATTCAAGGCCTTCGATCTGGGGGGTCACCAGATCG

upper sequence: GRMZM2G038356_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ24104 (Selaginella moellendorffii), 3'ss of exon 1
--------------gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
              |    ||   |  | || ||   ||| |    |   ||        |||    |||  ||   |  ||  | || |   | ||  || ||| | ||||| ||||||||||| || ||| | || || || |||||||| ||||||  ||||||||| |||||||||||||| || || || ||||||||||
gtgagtggtttccagcttaccctagatctccatcgcgttctgaggccgcctctcttgcgcgctcttttggttttttgttttcttttctcg---caattcttccagAGATTGGTACAGCACCAGCCCACCCAGTATCCAACATCCGAGGAGCTAAGCATCAACAAGATCAAATTCAAGGCCTTCGATCTGGGGGGTCACCAGATCG

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|211298231|gb|FL360510.1|FL360510
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211430402|gb|FL348341.1|FL348341
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211019119|gb|FL360752.1|FL360752
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211112436|gb|FL338797.1|FL338797
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|71323617|gb|DR798487.1|DR798487
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|78087929|gb|DV516322.1|DV516322
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211304609|gb|FL362626.1|FL362626
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|37420296|gb|CF647838.1|CF647838
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|76011887|gb|DT939057.1|DT939057
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|71757696|gb|DR955633.1|DR955633
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211543374|gb|FL321075.1|FL321075
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211208670|gb|FL354187.1|FL354187
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|13389140|gb|BG462572.1|BG462572
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|15209079|gb|BI430963.1|BI430963
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211095805|gb|FL316681.1|FL316681
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211205591|gb|FL329106.1|FL329106
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTNGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211137367|gb|FL362117.1|FL362117
EST:     CCTCGACAACGCCGGCAAGACCWWCGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: CCTCGACAACGCCGGCAAGACC-ACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|21626456|gb|BQ621377.1|BQ621377
EST:     AGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: AGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|89761899|gb|DY689728.1|DY689728
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|22546231|gb|BU098542.1|BU098542
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|71323616|gb|DR798486.1|DR798486
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211016426|gb|FL365145.1|FL365145
EST:     GCCTCGACAACGCCGGCRAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|21891770|gb|BQ744983.1|BQ744983
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211225008|gb|FL349034.1|FL349034
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|9732208|gb|BE510975.1|BE510975
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGC
EST: gi|211468054|gb|FL348806.1|FL348806
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211503581|gb|FL361472.1|FL361472
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211138799|gb|FL308452.1|FL308452
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211088468|gb|FL317120.1|FL317120
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211483659|gb|FL342583.1|FL342583
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|50323804|gb|CO518930.1|CO518930
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|76283564|gb|DV023132.1|DV023132
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211127050|gb|FL354964.1|FL354964
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211239886|gb|FL352735.1|FL352735
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|60354065|gb|DN221038.1|DN221038
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|26557973|gb|CA830208.1|CA830208
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|149081518|gb|EE170654.2|EE170654
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211472806|gb|FL336887.1|FL336887
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|89250040|gb|DY621826.1|DY621826
EST:     TCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: TCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|9952921|gb|BE639504.1|BE639504
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|21331837|gb|BQ487218.1|BQ487218
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|76011886|gb|DT939056.1|DT939056
EST:     TCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: TCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|71757697|gb|DR955634.1|DR955634
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|21891755|gb|BQ744968.1|BQ744968
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
EST: gi|211350038|gb|FL354321.1|FL354321
EST:     GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAG                         CGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC
genomic: GCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGC

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: 142

GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 122

GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 121

GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 137

GCTGGCCTCCCTCGGCCTGTGGCAGAAGGAGGCCAAGATCCTCTTCCTTGGCCTCGACAACGCCGGCAAGACCACGCTGCTCCACATGCTCAAGGACGAGgtacgccacc ... atcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG
                        gcctgat  putative branch site (score: 137)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgccaccgtcccccgtctgcttccggtatcctatcctagatctgcttccctgggcttgcctgatccgtgcttgtttcgatcgttgcagCGGTTGGTGCAGCACCAGCCGACGCAGCACCCGACGTCGGAGGAGCTCAGCATCGGCAAGATCAAGTTCAAGGCCTTCGACCTCGGCGGCCACCAGATCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA