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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG

Basic information

species Zea mays
transcript GRMZM2G143462_T06
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g08300.2 (Oryza sativa), 3'ss of exon 1
-ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
  || | |||||| ||||  | || | | ||  |||   ||   | | |  |  |||  |  |   |  || | || | ||    || |  |||  | |||||||||||||| |||||||  || |||||||||||||| || || ||||| ||||||||||||||  ||||||||  |||||| ||||| ||||||||||
tttatttcttgtctgctacgtcttctataattatagcaaaaatggctctgcta-catatataaccgttccaggatttttctgtttgtacactatggaacagATTATGGCTGTCAAGAAGATCATTGAAGAGATACAAGGAAAGGATAGCTACCCATGGGGCCAACAGTTGCTGATTCACAATGGCAAGGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G23930.2 (Glycine max), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatc-gtagttgaatgagttttattggca-ttcaatattttgtcaaggttctactaaaggttccttattt-accagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
 ||||  |     ||||  | |||||  |||  | ||| |     |   |||| || ||   | |||  | |         |   | ||  || |   | ||| |||||||||| ||||||||||| |||||  ||||||| ||||| |  || ||||| || || ||| || |||||  |||||| ||||| ||||||||||
-taattttgaagtgcta--ttttttgaaatctattgtttatcagctgaaattgtcaatttgttgtttaattagctgaagttttctgcttttttgtcccatcagGTTATGGCTGTCAAGAAGAATATTGAAGATGTACAAGGAAAAGATAATTACCCATGTGGACAGCAATTGTTGATTCACAATGGCAAGGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G44910.2 (Glycine max), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattca---atattttgtcaaggttctactaaaggttccttatttac----cagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
     |   ||||  | |     ||   | |  | ||   ||  ||||| |  |||||    | ||  | |  |  |  || |   | |   |||| | |    ||||||||||| || ||||||||||| |||||  ||||||| |||||||  || ||||| || || ||| |||| |||  |||||                  
-----gtcagtcatatgatctcattcccaacccaattc--tgctttttaatttcattcttccaaatcctatgcatttcttaattgtgatgttttatcttcacctcagATTATGGCAGTCAAGAAGAATATCGAAGATGTACAAGGCAAAGACAATTACCCATGTGGACAGCAATTGCTCATTCACAATG------------------

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G44910.1 (Glycine max), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattca---atattttgtcaaggttctactaaaggttccttatttac----cagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
     |   ||||  | |     ||   | |  | ||   ||  ||||| |  |||||    | ||  | |  |  |  || |   | |   |||| | |    ||||||||||| || ||||||||||| |||||  ||||||| |||||||  || ||||| || || ||| |||| |||  |||||| ||||| ||||||||||
-----gtcagtcatatgatctcattcccaacccaattc--tgctttttaatttcattcttccaaatcctatgcatttcttaattgtgatgttttatcttcacctcagATTATGGCAGTCAAGAAGAATATCGAAGATGTACAAGGCAAAGACAATTACCCATGTGGACAGCAATTGCTCATTCACAATGGTAAGGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G00490.1 (Glycine max), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttattta------ccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
  ||   ||       || || | |||  ||  | |  | ||  | | |   | | | |  | |||||      |   || |  |||| |  |||        ||| |||||||||| ||||||||||| |||||  ||||||| ||||| |  || ||||| || || ||| ||||||||  |||||| ||||| ||||||||||
ggaaaattt-----tgaagtgctatgtt-tcaaattctattgtttatcagccgaaattatcaatttgttgtttattagctgagtgttcttctttttgtcacctcagGTTATGGCTGTCAAGAAGAATATTGAAGATGTACAAGGAAAAGATAATTACCCATGTGGACAGCAATTGCTGATTCACAATGGTAAGGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: AT1G16190.1 (Arabidopsis thaliana), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttatttacc-----agATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
     | || |    |  |  |    ||   |  ||||| ||||| |  ||| |  | | |  ||         | | ||  |  ||   || ||  |     |||| ||||| |||||||||||||| |||||   |||| | ||||||| |||||| || || || ||| | ||||||  |||||||||||| ||||||||||
----agtttttttttttccgatgaaatggatg-ggttgagtgagtgtatttgtctatgagttcttacatggttatatcctggaatttttctactttgctttgaagATAATGGCGGTGAAGAAGAATATTGAAGATTCACAAAGCAAAGACAACTATCCTTGTGGGCAGCAATTACTGATTCACAATGGAAAGGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: AT1G79650.1 (Arabidopsis thaliana), 3'ss of exon 1
------ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
      | |||  |     || ||     |  || |  | ||  | |   || | || |  |||||    |  | ||   |   |   | || | || |||   |||| ||||| ||||||||||||||||||||   |||||| |||||||  |||||||| || || ||| || |||||  ||||||||| || ||||||||||
actgctaaaattatgactcgcgaatccaatc-tggtt-tggtcaagttgattatgttagtcttcaaa---tcattaaatctgggcatgatgtgc-ttgtttttaagATAATGGCGGTGAAGAAGAATATAGAAGATTCACAAGGAAAAGACAATTATCCATGTGGGCAGCAATTGTTGATTCACAATGGAAAAGTTTTGAAAGATG

upper sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
lower sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttt--tattggcattcaat-attttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
   |  ||  ||| ||   |        |   || |||  ||||| |  |     ||    || | ||  | ||     |  |||  | |  ||   |   || ||||||| || ||||| || || |||||  ||||||| ||||||| |||||| || || |||||| |  |||||   ||||||||||||||||||||||
---actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG

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|211491198|gb|FK957019.1|FK957019
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGWGATWCNAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|74242202|gb|DT650116.1|DT650116
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|148995692|gb|EE034914.2|EE034914
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211488320|gb|FK957010.1|FK957010
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491201|gb|FK957022.1|FK957022
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATTGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|89759371|gb|DY688230.1|DY688230
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|30306905|gb|CD001578.1|CD001578
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211494075|gb|FK957027.1|FK957027
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAG-CCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211488314|gb|FK957004.1|FK957004
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|20300760|gb|BQ163703.1|BQ163703
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491197|gb|FK957018.1|FK957018
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAG-CCAACGACACG                         ATTATGGCTGTGAAGAAGAATATTGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491203|gb|FK957024.1|FK957024
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491196|gb|FK957017.1|FK957017
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCATCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|148947026|gb|EC892323.2|EC892323
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491191|gb|FK957012.1|FK957012
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|89758471|gb|DY687642.1|DY687642
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211488319|gb|FK957009.1|FK957009
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211488318|gb|FK957008.1|FK957008
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|89761592|gb|DY689541.1|DY689541
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491193|gb|FK957014.1|FK957014
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491205|gb|FK957026.1|FK957026
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAG-CCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491192|gb|FK957013.1|FK957013
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCATCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|78111156|gb|DV529553.1|DV529553
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|148999208|gb|EE036127.2|EE036127
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211491194|gb|FK957015.1|FK957015
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATTGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|37423537|gb|CF649496.1|CF649496
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|93280956|gb|EB673220.1|EB673220
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|211488316|gb|FK957006.1|FK957006
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATTGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|20300388|gb|BQ163331.1|BQ163331
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|149095756|gb|EE181396.2|EE181396
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|71771539|gb|DR969476.1|DR969476
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|32805412|gb|CD957648.1|CD957648
EST:     GATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATTGAAGAGGTACAAGGAAAAGACAGCTAT
genomic: GATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
EST: gi|76912415|gb|DV164721.1|DV164721
EST:     AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACG                         ATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT
genomic: AGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTAT

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), 48 (downstream exon)
Score: 506

CTGCATCGGATTGTCCCCGCCCCCGCTAGGCGCCATGAAGCTGACGGTGAAGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 229

CTGCATCGGATTGTCCCCGCCCCCGCTAGGCGCCATGAAGCTGACGGTGAAGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 128

CTGCATCGGATTGTCCCCGCCCCCGCTAGGCGCCATGAAGCTGACGGTGAAGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 288

CTGCATCGGATTGTCCCCGCCCCCGCTAGGCGCCATGAAGCTGACGGTGAAGACCCTCAAGGGAACGCACTTCGAGATCCGGGTGCAGCCCAACGACACGgtgagatatt ... tatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattggcattcaatattttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
                               tactaaa  putative branch site (score: 288)
                                        ttccttattt  putative PPT
         attcaatattttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttttattggcattcaatattttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - tgcttgt
- - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - -ttgaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - gcattca