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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

Basic information

species Zea mays
transcript GRMZM2G180724_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 1
gtgag-------ttctcggctacaaggccgtctccga--ttcgcatgcatgggtttttacggtatgttgcatc-gtttctcgctgt--ggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
|||||       | |||  |  |  |  | ||  |||  | | | | |||   |  |  |  | || |||  | | || | ||||   || ||||||||||||||||| || |||||| |||||||||||||||| || ||||||||| |||||||||||||||||||||||||||||||| | |||||||||||
gtgagctcctcctcctcctccgcctgttcctcgtcgacctccccctacatctctcctctct-tctgatgcgcccggtttttgctgcgaggtgcagGGGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGC

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 1
------------------gtgagttctcggctacaaggccgtctccgatt-----cgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtg----gcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
                  |     || |  |  ||    |||||||  ||     | | | ||      | |      || | | || |   ||| | ||    || |||| ||||||||||| || |||||| |||||||||||||||| || ||||||||| ||||||||||||||||||| ||||||||||||||||||||||||||
gtgagctcctcctccgacgccgcctccctccatcactctcgtctccagtttcccacccctccacctccatctctctcctgatccgtcctccgtcgttttgctgtgcacagGTGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGC

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G41620.1 (Glycine max), 3'ss of exon 1
--gtg-agttctcggctac------aaggccgtctccgattcgcatgcatgggtttttac-ggtatgttgcatcgtttct--cgctgtggc-----gcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
   |  || | | || ||              | |  | | |   ||   |   | | |  | ||    |  | |||| |   | ||||         ||| || ||||||||||| || ||| ||||| | | |||||| || || || ||||| ||| ||||||| ||| | ||||||||||| |||||||| ||  |
atatatagcttttggttattctgatggaattatgtgtggtacctgtgttggaagtgtaattgataaaacgtgttgtttatgttggtgtgattggcaatagGTGCCTACAAGTATGTTTCAGAGCTATGGCGCAAGAAGCAGTCTGATGTCATGCGCTTCTTGCAGCGGGTGAGGTGCTGGGAGTATAGGCAGCAACCTTC

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv16s0013g02020.t01 (Vitis vinifera), 3'ss of exon 1
-------gtgagttctcggctacaaggccgtctccgattcgcatgca-----tgggtttttacggtatgttgcatc-----------gtttctcgctgtggcgc-agGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
          || | ||    ||       |   | | |  || ||      | || |||| || | ||| || ||            ||  |||  |||||   |||||| |||||||| || |||||| ||||||||| |||||||||||| |||||| ||||| ||||| | ||| | |||||||||||  | ||||| ||  |
gtaagcaccaagctttccttcactctctttttctctacttccaagcggatattagggttttccgatttgtggcttcctgttattggcattgttcgtggtggcattagGGGCTTACAAGTACGTGTCGGAGCTATGGAGGAAGAAGCAATCCGATGTGATGAGGTTCTTGCAGAGGGTGAGGTGCTGGGAGTATCGCCAGCACCCTTC

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S152_141V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------------------------------------------------------------------------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
                                                                                               |||| | |  ||     |  ||     |||     || | |  |||||    | | ||   |  ||| |   | |    |||| |||||||||||  ||  |||| | ||||||| |||||| || || ||| |||| ||| ||| ||| |||||||||||||||||||||||||  || | 
gtattcattcccagctccctctctctctagcgctgcgtagctgcgtagctgcgtttttttattttttttattttttatttttttccctttccttttgaggtttgcgcagtgtgatcg----agatctaactgga-gttttttttttttttttttttttttttttaaatttcctccagGTGCGTACAAGTACATCGAGGAGCTGTGGAGGAAGAAGCAGTCTGATGTGCTGCGTTTCTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S34_445V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatg-ttgc-atcgtttctcgctgtggcgc--agGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
             ||    | |   | |  ||     |  || |||| |    | ||| || |  || || |||      ||| | | | | || |  ||| || ||||||||  |   |||||| ||| ||| |||||| || || ||| |||||||  ||| ||| |||||||||||||||||||||||||  || | 
ttggtgcaatgctgttcaattttcacaattagagttccgtcggttcggagttttaggtgttgattgtctgattgttggtatttattgattttgctctcagGCGCCTACAAGTACATTGAGGAGTTGTGGCGGAAGAAGCAGTCTGATGTGCTGCGGTTTTTGCTGCGTGTGCGCTGCTGGGAGTACAGGCAGCTCCCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S134_151V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------------------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggttttta--cggtatgttgcatcgtt-tctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
                                          ||| ||    ||     | |||    | |||||| |   |||  || | |  |  ||  | |  |  || | | | ||      ||| |||||||||||  |   |||| | ||||||| ||| || ||||| ||| |||| ||| ||| ||| || |||||||||||||||||||||| ||| | 
gtaagcaatttctcgcagcctctgccctcgtcatggatctctgtgtgtatgtggagctgacgcctgaccagattcgga---atgaattctcaacctttaactagggtttttgttttgttgaattttagGTGCGTACAAGTACATTGAGGAGCTGTGGAGGAAGAAACAGTCCGATGTGCTGCGCTTCCTGCTGCGTGTTCGCTGCTGGGAGTACAGGCAGCTGCCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S28_15V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------gtgagttctcg-gctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
                      |||     ||  | |   ||   ||   ||| | |  || ||||| |||   ||| |  |  ||   || | | |   |   |||||||||||| ||  |   |||| ||||| ||| |||||| ||||| ||| |||| ||| |||  || |||||||||||||||||||||||||  || | 
cttcgatagctacgttgcaccggtgttgcttcatgttgttag--tgttggcgaattg--tgtatggggtttcggggtcttatttatttgttttggtt--tgtttagGGGCGTACAAATACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGATGTGTTGCGATTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGGCAGCTTCCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtgg---cgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
              |  ||   | ||| |   |   ||    ||   |   |   |    | |  ||| | ||   |  | | |   | |||   | |||| |||||||||||  |   |||| ||||| ||| |||||| ||||||||| |||| ||| |||  || |||||||||||||||||||| || |  || | 
gctttgtgttgtttggtagggttgggccattcgatggttggtgacgagagagtccgttaatgttgggttttttttgtaatgtgtgaatttggttccccagGCGCGTACAAGTACATTGAGGAGCTATGGCGGAAGAAGCAGTCCGACGTGCTGCGTTTCTTGCTTCGTGTGCGCTGCTGGGAGTACAGACAACTACCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ27946 (Selaginella moellendorffii), 3'ss of exon 1
gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
|| ||       || |  |  |  ||| |   |||  ||||    | |  |||    | ||||   ||| | || |  | |||| || ||||||||  ||  |||| ||||| ||| |||||||||||| |||||||| ||| ||  |||||| ||||||||||||||  | ||||  || | 
gtaagc-----actgctcgatcagctcagg--cgctcgcattt-ctctcgcggctgatcgcattccttc-ctctctctc-cagGTGCCTACAAGTACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

upper sequence: GRMZM2G180724_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ36722 (Selaginella moellendorffii), 3'ss of exon 1
gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
|| ||      | | |  |  |  ||| |   |||  ||||    | |  |||    | ||||   ||| | || |  | |||| || ||||| ||  ||  |||| ||||| ||| |||||||||||| |||||||| ||| ||  |||||| ||||||||||||||  | ||||  || | 
gtaagc-----gttgctcgatcagctcagg--cgctcgcattt-ctctcgcggctgatcgcattccttc-ctctctctc-cagGTGCCTACAAATACATCGAGGAGCTATGGCGGAAGAAGCAATCCGATGTGATGCGCTTCCTGATGCGCGTCCGCTGCTGGGAGTATCGCCAGCTCCCCGG

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|211150188|gb|FL390463.1|FL390463
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|71439673|gb|DR820723.1|DR820723
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211308638|gb|FL245985.1|FL245985
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|71312859|gb|DR792956.1|DR792956
EST:     CCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211227433|gb|FL371553.1|FL371553
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCRTACAAGTATGTCTCGGAGTTATGGAGGAGRAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|149083919|gb|EE173295.2|EE173295
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211097791|gb|FL409137.1|FL409137
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTAT
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTAT
EST: gi|31361321|gb|CD445678.1|CD445678
EST:     ACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: ACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211426442|gb|FL403278.1|FL403278
EST:     CACCTTCCCTACACCGYCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATKTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211229471|gb|FL370965.1|FL370965
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|22818973|gb|BU499063.1|BU499063
EST:     CGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211439116|gb|FL387594.1|FL387594
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|71311474|gb|DR792086.1|DR792086
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|71774755|gb|DR972633.1|DR972633
EST:     CGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211482748|gb|FL422874.1|FL422874
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|148970789|gb|EE021541.2|EE021541
EST:     CCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|78118822|gb|DV537206.1|DV537206
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAATTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211131040|gb|FL389077.1|FL389077
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|22715565|gb|BU197836.1|BU197836
EST:     TCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: TCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|148949918|gb|EC895421.2|EC895421
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|76015121|gb|DT942291.1|DT942291
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211032841|gb|FL425616.1|FL425616
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211124648|gb|FL376733.1|FL376733
EST:     TCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: TCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|78089949|gb|DV518323.1|DV518323
EST:     CTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211068163|gb|FL383745.1|FL383745
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|71426970|gb|DR808020.1|DR808020
EST:     CCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211317838|gb|FL424592.1|FL424592
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|20301204|gb|BQ164147.1|BQ164147
EST:     CGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211521230|gb|FL397614.1|FL397614
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211229946|gb|FL402256.1|FL402256
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211447333|gb|FL371649.1|FL371649
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|87156514|gb|DY401303.1|DY401303
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|211336188|gb|FL370173.1|FL370173
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|31362092|gb|CD446449.1|CD446449
EST:     ACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: ACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|149085487|gb|EE174996.2|EE174996
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|28873661|gb|CB329619.1|CB329619
EST:     ACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: ACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
EST: gi|21432144|gb|BQ547634.1|BQ547634
EST:     GTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGTAGGAGGAAGCAATCCGACGTG
genomic: GTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGG-AGGAGGAAGCAATCCGACGTG
EST: gi|76922744|gb|DV169152.1|DV169152
EST:     CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGG                         GGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA
genomic: CACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGA

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: 108

TCACTCCTACGCCGCCGCCACCTAAACCTCAGGCTCCTCTCCGCACACCCCACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 56

TCACTCCTACGCCGCCGCCACCTAAACCTCAGGCTCCTCTCCGCACACCCCACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 41

TCACTCCTACGCCGCCGCCACCTAAACCTCAGGCTCCTCTCCGCACACCCCACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC


Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 77

TCACTCCTACGCCGCCGCCACCTAAACCTCAGGCTCCTCTCCGCACACCCCACCTTCCCTACACCGCCGCCGCCGTCGCACGCAGCCGCATCCGCCATGGgtgagttctc ... tgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC
                                     tttctcgct  CT-rich tract
                ttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttctcggctacaaggccgtctccgattcgcatgcatgggtttttacggtatgttgcatcgtttctcgctgtggcgcagGGGCGTACAAGTATGTCTCGGAGTTATGGAGGAGGAAGCAATCCGACGTGATGCGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACAGGCAGCAGCCGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT