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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctgtcattggatatttccacctaatattgtttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG

Basic information

species Zea mays
transcript GRMZM2G152552_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g33920.1 (Oryza sativa), 3'ss of exon 2
--tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctg-----tcattggatatttccacctaatattgtttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
  ||||        |  ||   | | ||| | | |   | |   | ||     ||| |||||||||  || | |   | | ||     | ||||    | | ||||||| || ||||||||||||||||||||||| |||||||||||| |||||| ||||||||||||||||||||| ||||||||||| |||||||||| ||| |
gatacc---gtttggttcttcatattaccgatattacttttctctatgctatttcactggatatttgtacttgaggatttata----cagtgttctattttctccagATTCCCCACTTGAGGCCTGCTGAGTACAAGAGGTCCAGGTTGTCTAGGAACCGCAGGACTGTGAACCGTCCATATGGTGGAGTGCTCTCTGGAACTGCAG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G11920.1 (Glycine max), 3'ss of exon 2
tacctgaacaatgccctcagtgtcaccaaaactgggtat-tcatctgtcattggatatttccacctaatattgtttaatgctattgtttcc---atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
       | | |    |   | |   | |       ||| |   ||||  |||||||     |  ||   || |  | | ||| | | | |   | | || ||||| || |||||||||||||| |||||||| || || ||||| || || | ||| |||||||| |||||| | ||||| |||||  | ||||||| |||||
----cagatatttttttggctttatgcgagggacattatgtttcctgtgtttggataaaattatatatctttttcaactactaatttatgcttgacaattgcagATTCCACACTTGAGGCCTGCAGAGTACAAGAGATCAAGGTTACCCAGAAACCGTAGGACTGTCAACCGTGCATATGGCGGAGTTTTGTCTGGAAGTGCTG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G05740.1 (Glycine max), 3'ss of exon 2
tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctgtcattggatatttccacctaatattgtttaatgctattgtttcc---atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
   |   |   |    |   |  |   |           |   ||||  |||||||     || ||   || |  ||| ||| | | | |   | | || ||||| || |||||||||||||| |||||||| ||||| ||||| || || | ||| |||||||| |||||| | |||||||||||  | ||||||| ||| |
---ccagatgtttttttgctttacgtgagggacattatgtttcctgtgtttggataaaattacatatctttttcaaattctaatttatgcttgacaattgcagATTCCACACTTGAGGCCTGCAGAGTACAAGAGGTCAAGGTTACCCAGAAACCGTAGGACTGTCAACCGTGCATATGGTGGAGTTTTATCTGGAAGTGCCG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G28900.1 (Arabidopsis thaliana), 3'ss of exon 2
-tacctgaacaat-gccctcagtgtcaccaaaactgggtattcatctgtcattggatatttccacctaatattgtttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
 |||    |   |    |||| |   |||  ||      |||| | | |  |    ||        |  ||   |||| |     |||||   | | | ||||| || || ||||| |||||||||||||||||||| |||||| | |||| |   ||||| ||||| ||| | |||||||| || || |||||| ||||||
ttactcatatgcttaatctcaatagaacctcaaaaacacattccttt-ttttgaattagcatggtttcttaagctttactttctatgtttgt-tttctgcagATTCCGCATTTGAGACCTGCTGAGTACAAAAGGTCAAGGTTGGCAAGGAACGAGAGGACAGTGAATCGTGCATATGGTGGTGTTCTATCTGGAGTTGCTG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT1G26880.1 (Arabidopsis thaliana), 3'ss of exon 2
tacctgaaca-atgccctcagtgtcaccaaaactgggtat--tcatctgtcattggatatttccacctaatattgttt-aatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
  | |   || |     ||||| |   |  ||||   |||  |    | |     |  || | |   |   ||| | | |||    ||||||   ||||  ||||||||||||||||||||  |||||||||| ||||| || ||  | || | | | |||||||| |||||  | || ||||||||  | |||||   ||| |
--ctttggcataaattttcagtttattcccaactatatatgtttgattatgcaatggcatattccttttgcattatgtgaataactttgtttgtttatt--cagATCCCTCACTTGAGGCCCTCTGAGTACAAGAGGTCAAGATTATCAAGAAACAGGAGGACTGTAAACCGAGCATACGGTGGAGTCTTGTCTGGTTCTGCAG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv14s0108g00850.t01 (Vitis vinifera), 3'ss of exon 2
--tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctgtcattggatatttccacctaatattgtttaatgctattgtttc-catatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
    || ||    |  | |  || |       | | |  |  ||| | |  |     | ||    | ||| || | |  | | ||| |||    ||| | ||||| |||||| |||| |||||||| ||||| ||||| || ||||| |||| ||| ||||||||||||||  | ||||| || ||  | || ||   |||||
gtggccagagttttcacttgtgtttacttgtgattag--aaccatatattctgcttcaattgtgtc-aattttttcttttacaattctttgatctatctgcagATTCCTCACCTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCAAGGAACCGTAGGACTGTGAACCGGGCCTATGGAGGTGTTTTGTCGGGTGGTGCTG

upper sequence: GRMZM2G152552_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0026g02410.t01 (Vitis vinifera), 3'ss of exon 2
tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctgt-cattggatatttccacctaatattg--tttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
   ||| ||| |    |     | |    | |    | ||  | |||  | |  | |||||     | | |||  | | ||   ||  |  | || | | ||||| |||||| | || ||||| || ||||| ||||| || || ||||||| ||| ||||||||||||||| ||||||| || ||  | ||||||  |||||
--actgcacattttgatagcatttattgtagcacaat-ttggtttgtatacttaaaatttcagtgcatttttggatgtgatagaatgttggctatgtctgcagATTCCTCACCTAAGACCTGCAGAATACAAGAGGTCTAGATTACCTAGGAACCGTAGGACTGTGAACCGTGCTTATGGGGGTGTGTTGTCTGGAGGTGCTG

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|32908558|gb|CF013371.1|CF013371
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|161588589|gb|EY958526.1|EY958526
EST:     CGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTAACAAAAGGTCCAGGTTGCCTAGGAG
genomic: CGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGT-ACAAAAGGTCCAGGTTGCCTAGGAG
EST: gi|60340593|gb|DN207566.1|DN207566
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|15208720|gb|BI430604.1|BI430604
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075783|gb|FL122622.1|FL122622
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|19770210|gb|BQ034931.1|BQ034931
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|32937599|gb|CF042418.1|CF042418
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|15499395|gb|BI595908.1|BI595908
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|30031693|gb|CB833544.1|CB833544
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGTCTGTTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|9255232|gb|BE345700.1|BE345700
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|32846789|gb|CD986470.1|CD986470
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|30031692|gb|CB833543.1|CB833543
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|18661727|gb|BM501548.1|BM501548
EST:     GAGGGCGAACGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: GAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|16919391|gb|BM074168.1|BM074168
EST:     CCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: CCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|60352266|gb|DN219239.1|DN219239
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|32910557|gb|CF015369.1|CF015369
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|16919052|gb|BM074017.1|BM074017
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|15198797|gb|BI423490.1|BI423490
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|15427013|gb|BI542835.1|BI542835
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075786|gb|FL122625.1|FL122625
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|71770590|gb|DR968527.1|DR968527
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|32911317|gb|CF016129.1|CF016129
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCCCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|33094622|gb|CF054616.1|CF054616
EST:     GGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: GGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075787|gb|FL122626.1|FL122626
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|8930357|gb|BE225121.1|BE225121
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075788|gb|FL122627.1|FL122627
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075791|gb|FL122630.1|FL122630
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075781|gb|FL122620.1|FL122620
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAKAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACA
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACA
EST: gi|211078527|gb|FL122635.1|FL122635
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|32857276|gb|CD996957.1|CD996957
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|45567828|gb|CK985766.1|CK985766
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|60342856|gb|DN209829.1|DN209829
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|5566758|gb|AI881624.1|AI881624
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
EST: gi|211075784|gb|FL122623.1|FL122623
EST:     AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGG                         ATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC
genomic: AGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGC

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: 416

GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 323

GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 271

GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 200

GCGGGAAGCTTGTGTACCAGTACACCAAGAAGAGGGCGAGCGGGCCCAAGTGCCCCGTCACCGGGAAGAAAATCCAGGGGgtgagtgatt ... atatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcattggatatttccacctaatattgtttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG
                                        tttccat  CT-rich tract
                   taatattgtttaat  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
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tacctgaacaatgccctcagtgtcaccaaaactgggtattcatctgtcattggatatttccacctaatattgtttaatgctattgtttccatatttccagATCCCTCACTTGAGGCCTGCTGAGTACAAAAGGTCCAGGTTGCCTAGGAGCCGCAGGACTGTGAACCGTCCTTATGGTGGAGTACTCTCTGGAATTGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
-acctgaa
- - - - - -tgccctc
- - - - - - - - - - - -caccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctattg