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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag

Basic information

species Zea mays
transcript GRMZM2G044027_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g16980.5 (Oryza sativa), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttat-aatctatgtctgtag
|||||||||| || ||||| |||||||||||||| ||||| || |||||||| ||||||||||||||||||||||||||||||| ||                       |||| |||||  ||| ||| |  ||||||   |   || || |  ||   | | |  | |||||   ||||||| |||||||
GAGTCAGGAGTTGCTATGACGAGGGTAAGCGTGTCGCAGAAACACTGATGTTTGACTATCACAGGCAGCATGGCATTGgtaatattt-----------------------ttagttcata--cctttttgtcttgtgatg--tactggattgtagttctccttaataagtattttccaatctatctctgtag

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA12G06980.3 (Glycine max), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag------------------
||||  |||| |||||||||||||| |||||||| ||||| ||  ||||||| || ||||| |||||||| || || |||||| | | |||||     |     | || ||    |  | |    |   |    ||   |  | |   ||   | |   |  | |||||||  |  |    |||  | |                    
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCACGGAATCGgtaattccttatctttt--ctccttggcaacatctcattgttgagggcacaaaca-gtagaagttttgcactgccgttaactaataagcaataactcaatgtgatgcttattttcattttttttctctcag

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctct---ttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag------------------------
||||  |||| |||||||||||||| |||||||| ||||| ||  ||||||| || ||||| ||||||||||| || |||||| | | |||||    ||   || |  |  | |   | | | |  |   | |  |    |  | |  | | ||   | |  |  | |  ||||   |  | ||   | ||  |                        
GAGTTCGGAGTTGTTATGATGAGGGCAAGCGTGTTGCAGAAACTTTGATGTTTGATTATCATAGGCAGCATGGAATCGgtaattccttatctttattttttccttttctccttggcaacatctcattgattgagggcacaaacagtacacgttttgcactgctgttaactaataagcaataactcaatgtgatgcttattttcatatttttctctcag

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 7
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag
| || ||||||||||||||||| || |||||||| || |||||  ||||||| ||||| |||||||| ||||| ||||||||   | ||| ||   || |  || |    | | ||  |  |||| |   |||  | |  |   |    || |  ||| | |     | | ||| |  |   | | |||||
GTGTTAGGAGCTGTTATGATGAAGGCAAGCGTGTTGCTGAGACCTTGATGTTTGACTACCACAGGCAACATGGAATTGgtaa-gttgcatttt---ctcaggctctcgcttcaactt-tctccctgtaatttgcatcaacatattctcattgtcctttattccttaaattgtttttgtttcttctttgtag

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag
| ||  ||||||| ||||||||||| |||||||| || |||||  ||||||| || ||||| ||||| ||||| || |||||       | |||   ||      |  | |||   |  | |   ||| | ||  |   || | |     | |   ||||        ||||||   |             
GTGTGCGGAGCTGCTATGATGAGGGGAAGCGTGTGGCTGAGACTTTGATGTTTGATTATCATAGGCAACATGGGATAGgtaac------ttttgtgtttt-----tttttttaatcctgaacaaacttcaatgaatatgaagttttaatatgtatgttgtttct--ttatattttggacag----------

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: Vv13s0019g00840.t01 (Vitis vinifera), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatactt--catcttgcacttaaactgtaatattagctcatagccctctttat---tgtgtgataactctaggcttatgatttgtcct-cagcaatatttataatctatgtctgtag-------------------------------------------------------------------
|||||||||| || ||||||||||| ||||| || || || || |||||||| || ||||||||||||||||| || ||||| | |   |  | |     | | |  ||     | | || || |  |   |    |         | ||  |    ||||  |   |  |  | | || |    ||    ||                                                                       
GAGTCAGGAGTTGCTATGATGAGGGAAAGCGAGTGGCTGAAACTCTGATGTTTGATTATCACAGGCAGCATGGAATAGgtaaaattgggctccctctctctgatccatacacccaacacacagacacccccacacctacacacattcactcagtcactgatgggatgtgtaaaattgttcactcccttcccctccctctctctatctgaaactctactttccaatgcactctcactttattttgaaatggtgatcctataacag

upper sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 8
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgta-atacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag
|||| || ||||| ||||| ||||| |||||||| || ||||| || ||||| ||||| || |||||||||||| |||||| |||| |   || |   |  | || |  ||  || | | |  |       || | ||      | | |  ||  |   |        |||||||| || ||          
GAGTAAGAAGCTGCTATGACGAGGGAAAGCGTGTTGCTGAGACTCTTATGTTTGACTACCATAGGCAGCATGGCGTTGgtatatacatt-cctcgtgttgtatcttttcta--agttaacacgctctacgcttttatgtcggtccaatgtgtactagaagcgt---aaaatattta-aacctggc-------

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|149089880|gb|EE179165.2|EE179165
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148944203|gb|EC889294.2|EC889294
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32841175|gb|CD980856.1|CD980856
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|14206834|gb|BG840512.1|BG840512
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148961007|gb|EE011707.2|EE011707
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32909997|gb|CF014809.1|CF014809
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|6194647|gb|AW146751.1|AW146751
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGAAGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32841101|gb|CD980782.1|CD980782
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|7216734|gb|AW562856.1|AW562856
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|37397262|gb|CF635926.1|CF635926
EST:     ATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: ATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|211032180|gb|FL277400.1|FL277400
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148970766|gb|EE021510.2|EE021510
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32850262|gb|CD989943.1|CD989943
EST:     GCGTGTAGCAGAGACGCCGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|67016223|gb|CO444972.1|CO444972
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32850632|gb|CD990313.1|CD990313
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148930565|gb|EE285203.2|EE285203
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAGGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|14202329|gb|BG836006.1|BG836006
EST:     GCGTGTGGAAGAGACGCTGATGTTCGACTWTRACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149097828|gb|EE183755.2|EE183755
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149107238|gb|EE189121.2|EE189121
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCAGGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32850554|gb|CD990235.1|CD990235
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|13149594|gb|BG319916.1|BG319916
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|71442898|gb|DR823948.1|DR823948
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|60359268|gb|DN226241.1|DN226241
EST:     TAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: TAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149107237|gb|EE189120.2|EE189120
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149081449|gb|EE170575.2|EE170575
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|213173372|gb|FM186537.1|FM186537
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|488218|gb|T18799.1|T18799
EST:     GACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|40337515|gb|CK371585.1|CK371585
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|37400341|gb|CF637522.1|CF637522
EST:     TCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: TCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148951041|gb|EC896695.2|EC896695
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149066780|gb|EE286922.2|EE286922
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32850616|gb|CD990297.1|CD990297
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148960534|gb|EE011139.2|EE011139
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32840343|gb|CD980024.1|CD980024
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149089846|gb|EE179125.2|EE179125
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTTCA-CACCTATGGGACCA-GGATGAACAT
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTT-CAACACCTATGG-ACCAAGGATGAACAT
EST: gi|32840626|gb|CD980307.1|CD980307
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149097834|gb|EE183762.2|EE183762
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32849033|gb|CD988714.1|CD988714
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|149097829|gb|EE183756.2|EE183756
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTTCA-CACCTATGGACCAAGGATGAACATT
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTT-CAACACCTATGGACCAAGGATGAACATT
EST: gi|67013235|gb|CO441984.1|CO441984
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148945878|gb|EC891170.2|EC891170
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|148956701|gb|EC902571.2|EC902571
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|213192508|gb|FM182601.1|FM182601
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|211427695|gb|FK999882.1|FK999882
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTTGC-AGGATTTTCA-CACCTATGGGGCAAGGATGA
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATT-GCCAGGATTTTCAACACCTATGGACCAAGGATGA
EST: gi|211032182|gb|FL277402.1|FL277402
EST:     CTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGGCCAAGGATGAACATTG
genomic: CTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
EST: gi|32165003|gb|CD670321.1|CD670321
EST:     GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTG                         AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG
genomic: GCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTG

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: 307

GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 538

GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 733

GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 995

GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttc ... atgtctgtagAAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTCAGGAGCTGTTATGATGAGGGTAAGCGTGTAGCAGAGACGCTGATGTTCGACTATCACAGGCAGCATGGCATTGgtaatacttcatcttgcacttaaactgtaatattagctcatagccctctttattgtgtgataactctaggcttatgatttgtcctcagcaatatttataatctatgtctgtag

- - - - - - - - - - - - - - - - - - - - -  GCTGAT