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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt...

Basic information

species Physcomitrella patens
transcript PP1S365_30V6.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os03g18570.1 (Oryza sativa), 5'ss of exon 4
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaa-aaccgttttctttgtgtaat--tccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt
|||||| ||  | || || ||||| | |||  |||| ||||| ||| | || ||||| |   | || ||||||||||| |||||||||||||| |||||||| |||  |  | |    |   || | || |||   ||    | |||  ||  |    |||  |  | |  ||  |  |   | | |  | ||    || |||
GAAGGCTGTGGTGATCCACGTGCCGTACCGTCTGCGCAAGGCATTCAAGAAAATCCATGTCAGGCTTGTCAGGGAGCTCGAGAAGAAGTTCAGCGGCAAGgtcaattacgtctttcccatttgtctactgtgttgcataggtcgcatgctaggag---ttcaatttactaactcataatacattgttgttagttcttaatgtt

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os02g21900.1 (Oryza sativa), 5'ss of exon 2
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaat---gtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt
    |  ||  | || ||||||   | ||   || | ||||| ||| | || ||||| | | | || |||| |||||| ||||||||||||||||||||||| |||   ||   | ||    ||   || |||   ||  |   |||  ||  |  |      |   | || ||||   | |  |         |  | || |
----GTGGTAGTGATCCATGTGTTGTACCATCTGTGCAAGGCATTCAAGAAAATCCATGTTAGGCTTGTCAAGGAGCTTGAGAAGAAGTTCAGTGGCAAGgtgaattgcgtgttcttagttgcctacttgtttacatagctt-gcatgctagtattttgataatgtctagtgttgtc--tatcagactgcaaaatctatagct

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os03g18580.1 (Oryza sativa), 5'ss of exon 3
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaa----acctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt
|||||| ||  | ||||| ||||| | |||  |||| ||||| ||| | || ||||| |   | || ||||||||||| |||||||||||||| |||||||| |||  |    |     |   |  | || | |  || || |  ||  |    ||    ||  |  | |  || ||  |   |   |  ||||    ||    
GAAGGCTGTGGTGATTCACGTGCCGTACCGTCTGCGCAAGGCATTCAAGAAAATCCATGTCAGGCTTGTCAGGGAGCTCGAGAAGAAGTTCAGCGGCAAGgtgaattacgttttcctgccttgtcaccttttttttttgcataggttgcatgctactagctcaatttactaactcgtaatacatttttgttggttcttaa----

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G458974_T03 (Zea mays), 5'ss of exon 1
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt
|||||| ||| |||| || || || | |||| |||| ||||| ||    |||||||| |   | ||||||||||||||||||||||| ||||| |||||||| | | ||    |       ||||| | |       | |    ||||                                                    
GAAGGCTGTTGTCATCCACGTCCCATACCGCCTGCGCAAGGCCTTTAGGAAGATCCATGTCAGACTCGTCAGGGAGCTGGAGAAGAAATTCAGCGGCAAGgtgattttctcttttt---ttgttttttctactgctgttcgtggtttag---------------------------------------------------

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G458974_T02 (Zea mays), 5'ss of exon 4
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtc-ttgttgtttttgggt-aatggtgtacaaagtt---
|||||| ||| |||| || || || | |||| |||| ||||| ||    |||||||| |   | ||||||||||||||||||||||| ||||| |||||||| | | ||    |       ||||| | |       | |    ||||     |  |  |   |||||   |  |   |     | || || |||     ||   
GAAGGCTGTTGTCATCCACGTCCCATACCGCCTGCGCAAGGCCTTTAGGAAGATCCATGTCAGACTCGTCAGGGAGCTGGAGAAGAAATTCAGCGGCAAGgtgattttctcttttt---ttgttttttctactgctgttcgtggtttagg--tttatatgctaattgtagctactacataaacctgaacggggtaatgcatttag

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G030016_T01 (Zea mays), 5'ss of exon 4
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtc-ttgttgtttttgggt-aatggtgtacaaagtt
|||||| ||| |||| || || || | |||| |||| ||||| |||   |||||||| |   | ||||||||||||||||||||||| ||||| |||||||| ||| ||    |    |   ||||||   ||   ||| |   ||||        |  |   |||||   |  |   |     | || || |||     ||
GAAGGCTGTTGTCATCCACGTCCCATACCGCCTGCGCAAGGCCTTCAGGAAGATCCATGTCAGACTCGTCAGGGAGCTGGAGAAGAAATTCAGCGGCAAGgtgaatttctcgttttttatttttttctac-tgctgttc-atggtttaggtttatatatgctaattgtagctactacataaacatgaacggggtaatgcatt

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G085420_T01 (Zea mays), 5'ss of exon 5
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtc-ttgttgtttttgggt-aatggtgtacaaagtt----
|||||| ||| |||| || || || | |||| |||| ||||| ||    |||||||| |   | ||||||||||||||||||||||| ||||| |||||||| | | ||    |       ||||| | |       | |    ||||     |  |  |  ||||||   |  |   |     | || || |||     ||    
GAAGGCTGTTGTCATCCACGTCCCATACCGCCTGCGCAAGGCCTTTAGGAAGATCCATGTCAGACTCGTCAGGGAGCTGGAGAAGAAATTCAGCGGCAAGgtgattttctctttt----ttgttttttctactgttgttcgtggtttagg--tttatatgctgattgtagctactacataaacctgaacggggtaatgcatttagt

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G053652_T02 (Zea mays), 5'ss of exon 3
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt--
|||||| ||| | || || || || | ||||||||| ||||| |||   |||||||| |   |  |||||||||||||||||||||| ||||| |||||||| ||| ||    |       |||||  |  ||   | | |  | |  |  |   ||    | | ||  |    | ||    |   |  || |   ||||  
GAAGGCTGTTGTGATCCACGTCCCATACCGCTTGCGTAAGGCCTTCAGGAAGATCCATGTCAGGATCGTCAGGGAGCTGGAGAAGAAATTCAGCGGCAAGgtgaatttctcgttttttttggttttactgctgctgtccgaagtgtatatgctaattgtagcaactgcataa--gcttgaacggggtaatggatttagttgc

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA05G34680.1 (Glycine max), 5'ss of exon 3
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt-------
 ||||| ||| | |||||||| |||| | | ||  |||| | |||||  ||||| || | | | || ||||||||||| ||||||||||| |||||||||||   |    || ||  |    |||    | | ||  |  | || ||    | || |   | | | || |   |   ||||    || |||| ||  ||        
CAAGGCTGTTGTTATTCATGTCCCTTACAGATTAAGGAAAGGTTTCCGTAAGATTCATGTTAGGCTTGTCAGGGAGCTTGAGAAGAAGTTTAGTGGCAAGgtaggtaaa-gcttagcatatttttgacatctatatattgatatgttctggcatcatt--ttggtagtttgaatacatttg----atagtgttcatggtcctttact

upper sequence: PP1S365_30V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: AT5G16130.1 (Arabidopsis thaliana), 5'ss of exon 4
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccaca----ttttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt
 || || ||| | ||| | || || ||| | ||| |||| |||||||  ||||| ||  | || |||||||| ||||| ||||||||||||||||| ||||| | | |           | || ||   |   |   |  |||    || ||  | ||||       | | |    || |||||   |  |  |  |||     
CAAAGCTGTTGTGATTTACGTTCCATTCAGATTGAGGAAAGCTTTCCGCAAGATTCATCCCCGTCTCGTCAGAGAGCTTGAGAAGAAGTTCAGTGGAAAGgtaattttataacattgctctgtctttagtaaatgcctaaacaatagttgtactatctctcttacacactctgccattctttttcatt--ttcttcacag----

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|37829663|gb|BJ587675.1|BJ587675
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|37823110|gb|BJ581176.1|BJ581176
EST:     AGATNCACGCTCGCNTNGTCAGGGAGCTNGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|37832746|gb|BJ590758.1|BJ590758
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67575809|gb|BJ948633.1|BJ948633
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|18350342|gb|BJ182393.1|BJ182393
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67569280|gb|BJ942104.1|BJ942104
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67507934|gb|BJ940809.1|BJ940809
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67701588|gb|BJ961821.1|BJ961821
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGA
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGA
EST: gi|67720077|gb|BJ970336.1|BJ970336
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162269406|gb|FC445274.1|FC445274
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162224097|gb|FC400663.1|FC400663
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162259460|gb|FC434971.1|FC434971
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|18343918|gb|BJ175956.1|BJ175956
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|37821117|gb|BJ579183.1|BJ579183
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162222949|gb|FC399606.1|FC399606
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162222948|gb|FC399605.1|FC399605
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67692538|gb|BJ952771.1|BJ952771
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCNCCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162273034|gb|FC449165.1|FC449165
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162269199|gb|FC444742.1|FC444742
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162269405|gb|FC445273.1|FC445273
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|18342040|gb|BJ174075.1|BJ174075
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162207039|gb|FC383048.1|FC383048
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162259459|gb|FC434970.1|FC434970
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162258534|gb|FC434749.1|FC434749
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67699293|gb|BJ959526.1|BJ959526
EST:     TCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: TCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|18343564|gb|BJ175602.1|BJ175602
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|37848967|gb|BJ606975.1|BJ606975
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|37822763|gb|BJ580829.1|BJ580829
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|18355803|gb|BJ187862.1|BJ187862
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162207038|gb|FC383047.1|FC383047
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162258533|gb|FC434748.1|FC434748
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162224096|gb|FC400662.1|FC400662
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67579229|gb|BJ951374.1|BJ951374
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162273035|gb|FC449166.1|FC449166
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162267419|gb|FC443962.1|FC443962
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|208364926|gb|DC947068.1|DC947068
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|67699593|gb|BJ959826.1|BJ959826
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
EST: gi|162269198|gb|FC444741.1|FC444741
EST:     AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAG                         GACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT
genomic: AGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGT

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 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 36

GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtcc ... gtttgtgtagGACGTTGTTTTCATTGTCACCAGACGCATCTTGAGACCCCCCAAGAAGGGTTCCGCTGTTAACAGGCCAAGGAGCAGGACTTTGACCGCTGTGCACGAGG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGGCCGTTATCATTCATGTGCCTTTCCGCTTGCGGAAGGCTTTCCAAAAGATCCACGCTCGCCTCGTCAGGGAGCTGGAGAAGAAGTTCAGTGGCAAGgttaatgtccgcataaaaaccgttttctttgtgtaattccacattttaaaacctcttcggtcgattgtcttgttgtttttgggtaatggtgtacaaagtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cataaaaa