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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag

Basic information

species Zea mays
transcript GRMZM2G180659_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os08g03350.1 (Oryza sativa), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|  ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||| |||||||  || |   |     |      |  ||      ||        |      |   | | | |  ||| ||     |     ||    |                          
CCAGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTCCTCAGCCTCCCCTACGCCATGTCCGAGCTCGGCTGgtcagtcctactatcttcttcatcttcatctgaacgaagaacacacgaacgaaccaagaaattaatctaactgaattcttgaatttttgcag-----------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G22590.1 (Glycine max), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgta-cgtgtccgagccatg----gatggatgctggagagagctcggctggtacatata-tatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
   |||| |  || |||||||| || || ||||||||||| || |||||||| || || || || ||| | || ||||| |||||||| |||||||| |||||  |  |    || |   |           |  ||    | |  ||  ||   | ||| | ||  ||  | | |  ||  |     |  ||| | || |                    
AAAGGAATGGAAAATGGTGGTATTCAGCTTTCCACAATGTTACTGCCATGGTTGGAGCTGGTGTTCTCGGTCTTCCCTATGCCATGTCAGAGCTTGGATGgtatatttcaaacccaaattacatcccagcttaaacttataatatttc--ctaaaagataaaataatgttattttaaaaca-tgttttaatcccataatcttg------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA16G06750.1 (Glycine max), 5'ss of exon 1
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctacc-ccatccccgtcatgtcatgtcgatctgcactgcag
|  |||| || || ||||||||||| ||||||||||||||||| |||||||| || || || || || || || || || |||||||| |||||||| |||||  | | |   | | ||   | |  ||  ||       ||        |    | | ||  | |||   || |  |     || | |   | || |    | |           
CAAGGAATGCAAAATGGTGGTACTCTGCCTTCCACAATGTCACTGCCATGGTTGGTGCTGGTGTTCTTAGTCTCCCATATGCCATGTCTGAGCTTGGATGgtatatccct---caaacccaagttacattttgcctttttcttattaaagat---tgtttaaacatcttttgatcacataattatgcacaaaaggtaaaaatgttt----------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT5G40780.2 (Arabidopsis thaliana), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|  | || || |||||||||||||| || || ||||||||||||||||||||||| ||||| || ||  | || || |||||||||||  |||| || |||||  | |    |  | |||     || |  |      | ||   | ||   || |||  | || |    ||    ||     |   | |                         
CAAGAAATGCAAAGTGGTGGTACTCTGCTTTTCACAATGTCACCGCCATGGTCGGTGCCGGAGTTCTTGGACTCCCTTACGCCATGTCTCAGCTCGGATGgtaaattccc--ctaaaccaaaaccggtttattt---tacctaaaccgg---atttatcaaatc-ttaaccggttttaatttgttttcttttcag--------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0010g02640.t01 (Vitis vinifera), 5'ss of exon 5
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgta-cgtgtccgagccatggatggatgctggagagagctcggctggtacat-atatatagtcgtctgacgaccct---accccatccccgtcatgtcatgtcgatctgcactgcag
| |||||||| || ||||||||||| || ||||||||||| ||||||||||| || || ||||| ||||| || || |||||| || | | ||| || ||||| ||  | |||      |||   |  |   || |      || |||  ||| |   |||||   |  | |    |||   |     |     |  |||                    
CCCGGAACGCGAAATGGTGGTACTCTGCATTCCACAATGTGACCGCCATGGTTGGGGCTGGCGTCCTCAGTCTCCCTTACGCCGTGGCAGGGCTCGGATGgtatgtttcctgtttctttcattcctaaaaa-tgaaattccttcagcttttactttgaatataaaagctttattgtcctgaaattgggttttgattctgtt-------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv14s0171g00400.t01 (Vitis vinifera), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagt--cgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|  |||| || || |||||||| || || ||||||||||| || ||||||||||| || || || ||| | || || |||||||||||||||||||| ||||| ||     |  | | | |       | |  |||| || |    |  ||  ||| | |  |  | | |||  |   |    |||       |    || | |||||   | |   
CCAGGAATGCAAAATGGTGGTATTCAGCATTCCACAATGTTACTGCCATGGTCGGAGCTGGTGTCCTCGGTCTCCCTTACGCCATGTCCGAGCTTGGATGgtatgtct---tttgtgtctt-------tacaagagatagttgccttattatttatgtctgattccatttgattaaggttgaacataa-----aaaaaatattgatcttttcag---

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0010g02660.t01 (Vitis vinifera), 5'ss of exon 1
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgta-cgtgtccgagccatggatggatgctggagagagctcggctggtacat-atatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
| |||||||| || ||||||||||| || ||||||||||| ||||||||||| || || ||| | ||||| || || ||||||||| | | |||||| ||||| ||  | |||      |||   |  |   ||||      || ||   ||| | | |||||   |  | |    | |    |    |  | || |  |                 
CCCGGAACGCGAAATGGTGGTACTCTGCATTCCACAATGTGACCGCCATGGTTGGGGCTGGCATCCTCAGTCTCCCTTACGCCATGGCAGGGCTTGGATGgtatgtttcatgtttctttcattcctaaaaa-tggaactccttcagcatttacttcaaatataaatgctttattgtcttgaaactcggctttgatattgtt----------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0010g02700.t01 (Vitis vinifera), 5'ss of exon 1
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgta-cgtgtccgagccatggatggatgctggagagagctcggctggtacat-atatatagtcgtctgacgaccct---accccatccccgtcatgtcatgtcgatctgcactgcag
|  ||||||| || ||||||||||| || ||||| ||||| ||||||||||| || || ||||| ||||| || || ||||||||| | | |||||| ||||| ||  | |||      |||   |  |   || |       |  |   ||| |   ||| |  ||  | |    |||   ||    |     |  |||                    
CCAGGAACGCGAAATGGTGGTACTCTGCATTCCATAATGTGACCGCCATGGTTGGGGCTGGCGTCCTCAGTCTCCCTTACGCCATGGCAGGGCTTGGATGgtatgtttcatgtttctttcattcctaaaaa-tgaaactcctacaacgtttactttgaatacaaacgctttattgtcctgaaactgggttttgattctgtt-------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0010g02520.t01 (Vitis vinifera), 5'ss of exon 1
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|  |||| || || ||||||||||| || ||||||||||| || |||||||| || || || || |||||||| || || || ||| | |||||||| |||||  |   | ||      ||   |  |  ||         ||  |||  | |  || | |   || ||| ||  ||||  |||   | | |    |  |   | |    |   |
CCAGGAATGCAAAATGGTGGTACTCGGCATTCCACAATGTGACTGCCATGGTTGGGGCTGGTGTCCTCAGCCTCCCTTATGCTATGGCAGAGCTTGGATGgtatctttctctc------attcctttactctta-------tcttctgaca-aagtaaaaaaaagt-tgatgattctactgcatttactttaatataaatgcttttctcatatgg

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S5_176V6.1 (Physcomitrella patens), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
  || || ||||| |||||||||||||||||||||||||| ||||| ||||| |||||||| |||||  |  ||||| ||||||||  | |  |    ||||  |  | |   |  |   ||  |  || |     ||||     | | | ||| | |  |||    |  || |  |   |    |  || | |  ||| | ||   || |||||
ATCGCAAAGCCAAATGGTGGTACTCCGCCTTCCACAATGTTACCGCAATGGTGGGCGCCGGAGTGCTGGGATTGCCCAACGCCATGGTCTACTTAACATGgtgagggc-tcctcacgttttgtcta-atccgtctcagagtcacacagtttcatgt-tgcagt----ttgcggcagtgggc---acaagtaacggaatggctattcaca-tgcag

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ10949 (Selaginella moellendorffii), 5'ss of exon 1
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgta-cgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|| |||||||||| |||||||||||||| || ||||| || ||||| ||||| ||  | ||||||||     | ||||  || |||    | || || ||||| ||| ||  |   |   | |  |  ||  |  || |  ||  | |  | ||                                                              
CGAGGAACGCCAAATGGTGGTACTCCGCGTTTCACAACGTAACCGCGATGGTAGGATCGGGCGTGCTGGCGTTACCCTCGGCTATGGTTTATCTGGGATGgtaacgttcgaatgtta-taacgtctacattttttagggttcttcgtttttccag-------------------------------------------------------------

upper sequence: GRMZM2G180659_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ10950 (Selaginella moellendorffii), 5'ss of exon 2
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag
|  |||||||||||||||||||||| |||||||| ||||||||||||||||| || || || || || ||||| ||||  || |||  | | ||||||||||| || | |  |  |||  |   | | | |     |  ||| |  |   |      ||   |||    |    | |   |  ||   ||  | |||| |||  ||         
CCAGGAACGCCAAGTGGTGGTACTCGGCCTTCCATAATGTCACCGCCATGGTTGGAGCTGGAGTTCTTAGCCTCCCCTCGGCGATGGTCTATCTTGGCTGgtaagttcttcgc--agctcttcttcgtttc----aatcgctagcttcaaattcgcttagtttcgatccaaattcttggtcagtcagtgttttctcat-tcgtgctc--------

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|211394813|gb|FL369337.1|FL369337
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTTCGTGGGTGATCACGCTGTACA
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGT-CGTGGGTGATCACGCTGTACA
EST: gi|148940921|gb|EC885756.2|EC885756
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|50328248|gb|CO523374.1|CO523374
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|71434774|gb|DR815824.1|DR815824
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149107811|gb|EE292173.2|EE292173
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148932677|gb|EC876623.2|EC876623
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148975411|gb|EE025712.2|EE025712
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149004475|gb|EE039080.2|EE039080
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148932289|gb|EC875855.2|EC875855
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148935036|gb|EC879077.2|EC879077
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149075213|gb|EE163712.2|EE163712
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|211164327|gb|FL378639.1|FL378639
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|71417506|gb|DR804088.1|DR804088
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149086294|gb|EE175835.2|EE175835
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149104379|gb|EE289824.2|EE289824
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148941455|gb|EC886378.2|EC886378
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149082751|gb|EE171974.2|EE171974
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|50329029|gb|CO524155.1|CO524155
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|148946031|gb|EC891330.2|EC891330
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
EST: gi|149113018|gb|EE191495.2|EE191495
EST:     GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTG                         GGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC
genomic: GTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACAC

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: 46 (upstream exon), 37 (downstream exon)
Score: 9

CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTCCCCGGGAAGCGGTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 202

CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTCCCCGGGAAGCGGTTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 234

CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTCCCCGGGAAGCGGTTC


Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 17

CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgt ... tgcactgcagGGGCCCTGGCATCGCGGTGCTGGTGGTGTCGTGGGTGATCACGCTGTACACGCTGTGGCAGATGGTGGAGATGCACGAGATGGTCCCCGGGAAGCGGTTC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCGGAACGCCAAGTGGTGGTACTCCGCCTTCCACAATGTCACCGCCATGGTCGGCGCCGGCGTGCTCAGCCTGCCCTACGCCATGTCCGAGCTTGGCTGgtacgtacgtgtccgagccatggatggatgctggagagagctcggctggtacatatatatagtcgtctgacgaccctaccccatccccgtcatgtcatgtcgatctgcactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT