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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcggctaactcatcctgttataccagttgatcttatatggctactcctgctgacagggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG

Basic information

species Zea mays
transcript GRMZM2G137528_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 7
gtatgttcggctaactcatcctg--ttataccagttgatcttat-atggctactcctgctgacagggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
||| || | | ||||| |   |   || |    ||| || ||   |||  | ||  || |||    | |||||   | |||  | | |||||||| || |||||  ||||||| |||||||| ||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||| |||||||
gtaagtgctgataacttactgtatattgtttgtgttaatttttccatgatttcttgtgttgatgatgcgctta---tcttttgctttcagTCACGCTTTGATATCTTGAAGATTCATTCAAGAAAAATGAACTTGATGCGTGGTATTGATCTGAAAAAGATCGCTGAAAAGATGAATGGGGCTTCAGGAG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 7
--------------gtatgttcggctaactcatcctgttataccagttgatctt-atatggctactcc--tgctgacagggtgct--------taacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
               |   | |  || | | ||    || |||  |  ||     ||    ||  | |  | || | |  ||  |        |  |  |||     ||||||| ||  | |||||| |||| ||||||||||| | |||||| || |||||||| || |||||||| ||||| || || ||||||||||| || || || |
gtttgcatttttgctttcatgctacttattaatatatttgtactgggagaaaaagatgcacctggtgcattcctaaaaaagtattcctgaaaatggctatttatttatgcagTCTCGGCTGGATATTTTGAAAATCCATTCAAGAAGAATGAATTTAATGCGTGGCATTGATCTGAAGAAGATTGCCGAGAAGATGAATGGAGCATCTGGTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------------------------------------------------------------------------gtatgttcggctaactcatcctgtt-ataccagttgatctta---tatggctactcctgctgac-agggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
                                                                                             | |  |  |  || |  |  | |  ||||   |||  |  |   |  |||    |    || | |  ||   |  |   | |    ||||||||||||| |||||  ||||||| || |||||||||||||| ||||||||||| ||||||||||||||||| ||||| ||||||||||| || ||||| |
gtaatgcttgtgtttcttaggacatgatattagaaataactttaaacttgaagtagcaactttgctcactccgttgtttttggtaaactatcatttactgcgtaaaatacttttctccatacttattgtacccaaagtgaggcaggacggtttggctaatgtatatttctaatatgtgttgcagTCACGTTTTGATATCTTGAAGATACACTCAAGGAAAATGAATTTGATGCGTGGAATCGATCTGAAAAAGATTGCAGAGAAGATGAATGGTGCTTCAGGTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 3'ss of exon 7
-----------------------------------------------------------------------------------------------------------gtatgttcggctaactcatcctgttataccagttgatcttatatg-gctactcctgct--gacagggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
                                                                                                           | ||      ||      |      ||||   ||   || |  || |  |   | | |  |  |  ||   |  ||    |    ||||||||||||| || ||  ||||||| || || ||||||||||| ||||||||||| ||||||||||||||||| ||||| ||||||||||| || ||||| |
gtaatacttgtgctctgagaaaatgatattgactgttgtttttggtgatatgaatacattattcgtcaaagtaggcaccttatttagtatttagactatcatttgcagcataaaaaacttttctttatctccatactcattttactcaagtgaggcaggacggtttggctaatgtatgtttccaaaatgtgttgcagTCACGTTTTGACATCTTGAAGATTCACTCGAGGAAAATGAATTTGATGCGTGGAATCGATCTGAAAAAGATTGCAGAGAAGATGAATGGCGCTTCAGGTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 3'ss of exon 7
----------gtatgttcggctaactcatcctgttataccagttgatcttatatggctactcctgctgaca----gggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
           || | |  |  |  | |   | |  || |  | | |  ||| || ||     |||  | |     | |  |||   |||        ||||| || |  |||||| | || || || || ||||||||||| ||||||||||| ||||||||||| ||||| ||||| ||||||||||| || || || |
gttatggtttttaggatatgtgatttgactttctggtagctat-gttgctatctgactggcattgcatatattaaagatttttattttttgaattactcagTCTCGCTGGGATATTTTAAAAATACACTCGAGGAAAATGAATTTGATGCGTGGGATCGATCTGAAGAAGATTGCAGAGAAGATGAATGGTGCATCTGGTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 7
----------gtatgttcggctaactcatcctgttataccagttgatcttat--atggctactcctgctgacagggtgcttaacctttttcccctg---cagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
           ||  ||||    | |||| ||| |||  || ||  | ||||  |  || |         ||| | || ||    ||||||   |    ||||| || || |||||| |||| ||||| ||||| ||||||||||| |||||||| || |||||||| ||||| ||||| ||||||||||| || || || |
agttatgattataaattcgat--attcattctgatatggcatttttttttatcaactgcaaaggtgaagcacatgctgatttttttttttcttttttttcagTCCCGCTTTGATATTTTGAAAATCCACTCAAGAAAAATGAACTTAATGCGTGGGATTGATCTGAAGAAGATAGCAGAGAAGATGAATGGTGCATCTGGTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S245_17V6.1 (Physcomitrella patens), 3'ss of exon 7
--------------------------gtatgttcggctaactcatcctgttataccagttgat-cttatatggctactcctgctgacagg-gtgc-ttaaccttt----ttcccctg-----cagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
                          |    |||  ||  | || | || | |  |  |   | ||||| |  || | ||   || |  | |||   ||| || |    || || ||     ||||| || || || || || || || ||||||||||| |||||||| ||||| ||||| ||| |||| ||||| || |||||||||   || || || ||||
gtatacaaaggcgtgatttataatttgccatttcctctctcccaccttgctctctcgctcctttcttatttttcttcgccccttgtcttgtgtgagctaatctatatgattgccttgttacgcagTCTCGATTGGACATCCTTAAAATTCATTCAAGGAAGATGAACTTAATGCGAGGTATTGATTTGAAGAAGATTGCTGAAAAGATGGGAGGCGCATCTGGAG

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|211436662|gb|FL284171.1|FL284171
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|37393602|gb|CF634067.1|CF634067
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|5108208|gb|AI739921.1|AI739921
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|7216253|gb|AW562375.1|AW562375
EST:     AAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: AAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|5268967|gb|AI770931.1|AI770931
EST:     TAGACAGGAAGATTGAGTTTNCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: TAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434072|gb|FL284165.1|FL284165
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|60341929|gb|DN208902.1|DN208902
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|213167947|gb|FM194936.1|FM194936
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436664|gb|FL284173.1|FL284173
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436658|gb|FL284167.1|FL284167
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|86468970|gb|DY235340.1|DY235340
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTTTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434071|gb|FL284164.1|FL284164
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436667|gb|FL284176.1|FL284176
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436671|gb|FL284180.1|FL284180
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436666|gb|FL284175.1|FL284175
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|6654125|gb|AW267530.1|AW267530
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|20300608|gb|BQ163551.1|BQ163551
EST:     GGCCTGGCCGCATAGACTGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32944271|gb|CF049090.1|CF049090
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32936020|gb|CF040832.1|CF040832
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|67024358|gb|CO453107.1|CO453107
EST:     G-CCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAA-TGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434065|gb|FL284158.1|FL284158
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436659|gb|FL284168.1|FL284168
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436668|gb|FL284177.1|FL284177
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32941552|gb|CF046371.1|CF046371
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436663|gb|FL284172.1|FL284172
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434068|gb|FL284161.1|FL284161
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTACCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|6021527|gb|AW066455.1|AW066455
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|86471403|gb|DY237773.1|DY237773
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32945809|gb|CF050628.1|CF050628
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGAAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|18177572|gb|BM378782.1|BM378782
EST:     GGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|4776454|gb|AI665457.1|AI665457
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|60395128|gb|DN227997.1|DN227997
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|37383142|gb|CF628557.1|CF628557
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|60352642|gb|DN219615.1|DN219615
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211431472|gb|FL284151.1|FL284151
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCADRTCAAGGAAAATGAACTTGATGCG
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCA-TTCAAGGAAAATGAACTTGATGCG
EST: gi|60350071|gb|DN217044.1|DN217044
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436665|gb|FL284174.1|FL284174
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTTTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434062|gb|FL284155.1|FL284155
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|21391089|gb|BQ529138.1|BQ529138
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436669|gb|FL284178.1|FL284178
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211431471|gb|FL284150.1|FL284150
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|6865378|gb|AW360728.1|AW360728
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|15053472|gb|BI359017.1|BI359017
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|60353200|gb|DN220173.1|DN220173
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211431470|gb|FL284149.1|FL284149
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|7216575|gb|AW562697.1|AW562697
EST:     AAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: AAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32839440|gb|CD979121.1|CD979121
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436660|gb|FL284169.1|FL284169
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|148954179|gb|EC899582.2|EC899582
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|149004243|gb|EE039011.2|EE039011
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|84908370|gb|DW404248.1|DW404248
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTTTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434059|gb|FL284152.1|FL284152
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|61118809|gb|DN559770.1|DN559770
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211436661|gb|FL284170.1|FL284170
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|32866276|gb|CF005958.1|CF005958
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434066|gb|FL284159.1|FL284159
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|149001189|gb|EE038457.2|EE038457
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTTTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|148981184|gb|EE027483.2|EE027483
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|113702815|gb|EE680319.1|EE680319
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434064|gb|FL284157.1|FL284157
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|211434070|gb|FL284163.1|FL284163
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT
EST: gi|149050302|gb|EE048574.2|EE048574
EST:     GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGAC                         TCACGTTTCGATATTTTGAAGATCCATTCAAGGAAAATGAACTTGATGCGG
genomic: GGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGT

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: 515

GTTTTGATGGCAACAAACAGAATAGACATTTTGGATCAAGCCCTTTTGAGGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 450

GTTTTGATGGCAACAAACAGAATAGACATTTTGGATCAAGCCCTTTTGAGGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 435

GTTTTGATGGCAACAAACAGAATAGACATTTTGGATCAAGCCCTTTTGAGGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 657

GTTTTGATGGCAACAAACAGAATAGACATTTTGGATCAAGCCCTTTTGAGGCCTGGCCGCATAGACAGGAAGATTGAGTTTCCAAATCCTAACGAGGACgtatgttcgg ... tcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatcttatatggctactcctgctgacagggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG
                                  cttaacctttttcccc  CT-rich tract
      ttatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttcggctaactcatcctgttataccagttgatcttatatggctactcctgctgacagggtgcttaacctttttcccctgcagTCACGTTTCGATATTCTGAAGATCCATTCAAGGAAAATGAACTTGATGCGTGGTATCGATCTGAAAAAGATCGCAGAAAAGATGAATGGGGCCTCAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG