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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaaatgagtcttgcactcttgttatttatgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG

Basic information

species Zea mays
transcript GRMZM2G168252_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g43620.1 (Oryza sativa), 3'ss of exon 1
atgaaatgagtcttgcact--cttgttatttatgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
|  |  |     ||| | |  ||||| |   |||     | | | |  | |   | |   ||    | |   |  | |  ||   | | |   ||   ||||||||| ||||||||||||||||||||| ||||||||||||| ||||||||||| ||||||||||| |||||||||||||| |||||||
acaatgtacacattgaatttgcttgtaacagatggaatttcgttctttttat--acatctttcctgttctgctcttaatggatggattgtttcttaatgcagACTGTTCCAGTTAACCCAAAACCTTTCTTGAACAACCTGACAGGGAAGCCTGTCATTGTCAAACTTAAGTGGGGTATGGAATACAAAG

upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g08090.1 (Oryza sativa), 3'ss of exon 1
--atga-aatgagtcttgcactcttgttatttatgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
  ||||  || | || ||   |   |||     || |  ||   ||||      |   ||  | |  || |     | |  |      |      |   ||||||||||||||||||||| || |||||| ||||||||||||| ||||||||||| ||||||||||| |||||||||||||| |||||||
tcatgatgattattcatggtattcagttccaagtggtgcctccatatacatcttgtctatactcttttatatactattaatggattgtttctaaat---gcagACTGTGCCAGTTAACCCGAAGCCTTTCTTGAACAACCTGACAGGGAAGCCTGTCATTGTCAAACTTAAGTGGGGTATGGAATACAAAG

upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA17G07060.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------------------atgaaatgagtcttgcact--cttgttatttatgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaac----tctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
                                                                            |   | ||| |      ||  || | | |   ||| |   || |   |  | |  |    || ||    |  | || |   |    |    ||  |||||  ||||||| | |||||||| || || |||||| |||||||  |||| ||||||||||||||||| ||||| |||||||| ||||||||||| |
gtgagtaccttcttcttgcactccctttacttaatcatcttccatttatttcattcacttaacctgcatcttcataactgagtgatttcaatgcttgctcgctttgagtgtgtagaaggtcacacgatgtgattaattgtgccttattttctaatttattttcgtcctcgtgttttttgcagACTATACCAGTTAATCCCAAGCCTTTCTTGAACAATTTGACTGGGAAGCCTGTAATTGTGAAACTGAAGTGGGGAATGGAGTACAAGG

upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G21250.1 (Glycine max), 3'ss of exon 1
-atgaaatgagtcttgcactcttgttatttatgtttgctagctataataaaggaaaatct-tatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
     |  || |      |||   ||   | |    | |  | | |||      || | |   | ||        | |    |    ||  |||||  ||||||| | ||||||||||| || |||||| |||||||  |||| |||||||| |||||||| |||||||||||||| ||||||||||| |
agctgagcgatttcaatgctcacattgagtgtagaaggtcac-acaatgtgattaattgtgccttattttttaatttattctggtcttcctgttttt-gcagACTATTCCAGTTAACCCCAAGCCTTTCTTGAACAATTTGACTGGGAAGCCCGTAATTGTGAAACTCAAGTGGGGAATGGAGTACAAGG

upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s0220g00030.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------------------------------------atgaaatgagtcttgcactcttgttattta----tgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttga--gcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
                                                                  || |  | |   | |    |  |  |   |    | ||  | ||  | || |||  |||||   |   |  |  || ||        | | | ||| ||   |||||| || ||| | ||||| || || ||| |||| ||| |||| ||||||||||| |||||||||||||||||||| |||||||||||||
gtaagtagttgattttatttatttatttttaagttattattattaattttcgtggagaattatttcataaggttatgttcgtctgcaggaaagagaaaatttttcccgagaaaaaaaaaaaaaaaatagaaatctggaaatgttc-ttatatgaatgttgttatgtttgcagACCGTACCACTGAACCCTAAGCCCTTCTTGAATAACTTGACTGGGAAGCCTGTCATTGTCAAACTCAAGTGGGGAATGGAGTACAAAG

upper sequence: GRMZM2G168252_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S219_41V6.1 (Physcomitrella patens), 3'ss of exon 1
atgaa-atgagtcttgcactcttgttatttatgtttgctagctataataaaggaaaatcttatgat---acacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
 |||   ||  |  || | |   || | | |  ||    || | || | |       |    || |   | |  |  |   || | || |     ||   | |||| ||||| || || || || || || |||||| || |||| |||||||| || ||||| |||||||||||||| |||||||||||||
-tgattgtgttttctggagtgaagtgaatgagtttcttaaggtgtattgattagctttgaggtgttttgaaatttaattcgcgtgtaaatgagcctt---gtagACAGTGCCTGTGAATCCGAAGCCCTTTCTGAACGACTTGACTGGGAAGCCGGTCATTGTGAAACTCAAGTGGGGCATGGAGTACAAAG

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|31405643|gb|CD484375.1|CD484375
EST:     CAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211141410|gb|FL260967.1|FL260967
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32864163|gb|CF003845.1|CF003845
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32859161|gb|CD998842.1|CD998842
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|28982615|gb|BQ539401.2|BQ539401
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142842|gb|FL260983.1|FL260983
EST:     CGAACCGCGCCGACGAGCGACKACNACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAANCACCTTTCCTGAACAACCTGACGGGGAAGCC
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAA-AACCTTTCCTGAACAACCTGACGGGGAAGCC
EST: gi|5607679|gb|AI901346.1|AI901346
EST:     CGCCGACGAGCGACGACAACCGTTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144268|gb|FL260991.1|FL260991
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATWCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211141405|gb|FL260962.1|FL260962
EST:     CGAACCGCGCCGACGAGCGACGACAACCGTTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144276|gb|FL260999.1|FL260999
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|33094679|gb|CF054673.1|CF054673
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|18163186|gb|BM333025.1|BM333025
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTTTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32856286|gb|CD995967.1|CD995967
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTNNGGGGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAG
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACT---GTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAG
EST: gi|32935643|gb|CF040455.1|CF040455
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142836|gb|FL260977.1|FL260977
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142832|gb|FL260973.1|FL260973
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|9731866|gb|BE510618.1|BE510618
EST:     CGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|18170962|gb|BM340802.1|BM340802
EST:     CGAACCGCGCCGACGAGCGACGACAACTGATGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211141409|gb|FL260966.1|FL260966
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142834|gb|FL260975.1|FL260975
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32913432|gb|CF018244.1|CF018244
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142846|gb|FL260987.1|FL260987
EST:     CGAACCGCGCCGACGAGCGACGACAACCGTTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144275|gb|FL260998.1|FL260998
EST:     CGAACCGCGCCGACGAGCGACGACAACCGTTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144269|gb|FL260992.1|FL260992
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144267|gb|FL260990.1|FL260990
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211141413|gb|FL260970.1|FL260970
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211144272|gb|FL260995.1|FL260995
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|211142843|gb|FL260984.1|FL260984
EST:     CGAACCGCGCCGACNAGCGACGACNACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32839007|gb|CD978688.1|CD978688
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32945393|gb|CF050212.1|CF050212
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGTTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|31405642|gb|CD484374.1|CD484374
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|32935872|gb|CF040684.1|CF040684
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
EST: gi|16917997|gb|BM073532.1|BM073532
EST:     CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCG                         ACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT
genomic: CGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCT

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: 546

CCAGCGCCAGGAACTGTAGTTTCGTCCTCGCGGCCTTCTCTCCCTCCAGTCGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG


Block sizes: 46 (upstream exon), 48 (downstream exon)
Score: 187

CCAGCGCCAGGAACTGTAGTTTCGTCCTCGCGGCCTTCTCTCCCTCCAGTCGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 170

CCAGCGCCAGGAACTGTAGTTTCGTCCTCGCGGCCTTCTCTCCCTCCAGTCGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 204

CCAGCGCCAGGAACTGTAGTTTCGTCCTCGCGGCCTTCTCTCCCTCCAGTCGAACCGCGCCGACGAGCGACGACAACTGCTGCTGCATTCTTCAATGGCGgtacgctctt ... ttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG
                         tgctcac  putative branch site (score: 204)
                                       ctctcgtttt  putative PPT
       aaaatcttatgata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgaaatgagtcttgcactcttgttatttatgtttgctagctataataaaggaaaatcttatgatacacgtgctcaccgagcaactctcgttttgagcagACTGTGCCAGTTAACCCAAAACCTTTCCTGAACAACCTGACGGGGAAGCCTGTAATTGTCAAACTCAAGTGGGGTATGGAGTACAAAG

-tgaaatg
- - - - - -cttgcac
- - - - - - - - - - - - - - - tgtttgc
- - - - - - - - - - - - - - - - - - - - - - - - aaggaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacgtgc