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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA

Basic information

species Oryza sativa
transcript LOC_Os05g44922.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G004932_T01 (Zea mays), 3'ss of exon 12
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtga-agttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
||| | || | |   ||        ||   ||| ||   || |  ||      |  |  |  | |    ||||| | |   | ||    ||| ||||||||||| |||||| |||| ||||||||||||||||||||||||||||||||||| || || || |||||||||||||| |||||||||||||| || ||
gtagccatttgtaactc-------ttatttttgctattgatatagttgtaacacatttctagattggtctgtgacaatattccatcggaattggcagATCCTACATACATGGTCCGTGCTATTCCAAGCAATGCATCAGACAATGTCTACTGTACACTTCTAGCCCACAGTGCTATCCATGGTGCAATGGCGGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA13G42990.1 (Glycine max), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattattt-gcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
            |    ||    |||    || ||  ||    ||||  |    |  |    |  || |||  |        |  ||| | | ||||||||||| ||||||||||| ||||| ||||| |||||||| || ||||| |||||||| || || ||||| |||||| | |||||||||||||| || ||
------------gtgagacgtgagatctctttttttaactatatattttta--ttgaagaacaaaaaattgacaccaataaaaaaattgtctcgcagATCCTACATACATGATCCGTGCTATCCCAAGTAATGCATCTGATAATGTATACTGCACCCTCCTTGCCCAAAGTGCTGTCCATGGTGCAATGGCAGGATA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA08G03570.1 (Glycine max), 3'ss of exon 11
--------------------------------gtaactatgtttgctt-cacacaggataaggttgttacacatcttat-tactggtctctattgtactaagttgtgaagttccctattattatttg-cagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                |||  | |   ||  | ||     ||| |  ||  |       ||   |||||      |    |  |||   || | ||   | ||| |||||| ||||||| || || |||||||||||  ||||||||||||| || ||||| || |||||||| || || || || |||||| ||||||| || ||||| || ||
gttcgtaaagacaaaaaactatatatttatacgtatgtgtacatgtgtgcatgttcgattacatttatgtgtgcattgcatactgaaagg-aggaaatcaagcattgca-tttttttttactatttgacagATCCAACGTATATGATCCGAGCAGTTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCTGTTCATGGAGCCATGGCAGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA05G36050.1 (Glycine max), 3'ss of exon 11
-------------------gtaactatgtttgctt---cacacaggataaggttgttacacatcttat-tactggtctctattgtactaagttgtgaagttccctattattatttg-cagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                     || |||   |   |   ||     ||| |  ||  |  |    ||   |||||      |    |  |||   || | ||   |  || |||||| ||||||| || || |||||||||||| ||||||||||||| || ||||| || |||||||| || || || || |||||| ||||||| || ||||| || ||
gttcgttaagacaaactatacaattatacgtatgtgtgcatgtttgattatatttatgtatgcattgcatactgaaagg-aggaaatcaagcattgcattttttt--tactatttgacagATCCAACGTATATGATCCGAGCTGTTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCTGTTCATGGAGCGATGGCAGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------------gtaact-atgtttgcttcacacaggataaggttgttacacatcttatt---actggtctctattgtactaagttgt---------------gaagttccctattatt--atttgc-agATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                                         ||   | || |||  |||  |   || |||||| ||  | || | | |   | |  ||||  ||  | | |||| |                 | ||   | |||||  || ||| |||||| || |||||||| || || |||||||||||||||||||||||||||||||| || || || || || |||||  | |||||||||||||| || ||
gtcagtttctcttacagcattctcctcttcctttttgacctatttatttcttacttagtctttcatttttatttcggatttga-aaggttttttaaaatttgactgacaattatctcattttaattgagttatctgcctagtgggataagactttgttgttattgtatctgccagATCCAACTTACATGATTCGGGCAATTCCAAGCAATGCATCAGACAATGTCTACTGTACACTTCTTGCTCAGAGTGCAGTCCATGGTGCAATGGCAGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA08G21370.1 (Glycine max), 3'ss of exon 10
gtaa-ctatgtttgcttcacacagg---ataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
|| | || | ||   |  ||    |   || ||  ||||||   | | |      ||   |||| ||   | |||  ||       ||| |   |   |||||| |||||||||||||||||| ||||||| | |||||| || ||||| || ||||| || || || || |||||| |||||||||||||||| || ||
gtgagctctattctttctactggtgcaaatgagagtgttacctgtataa-----agtaaatattctaaccaattgaaaaaa-----attttgtgtgatagATCCCACCTACATGATCCGAGCTGTTCCAAGTATTGCATCTGATAATGTATATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA07G15170.1 (Glycine max), 3'ss of exon 11
----gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
    ||||  || |   |||||   |     | ||    ||||| |  | |        | || |    |||         | |   ||||  ||| ||||||| || || ||||| |||||||||||||||||||| || ||||| || |||||||| || || || || |||||  ||||||| |||||||| || ||
gtttgtaaagat-taaacttcatggaattataagtgtgcacaca-cacactgaaaagagcaatggctgaaagagtaatgccttctctttatgttttacagATCCAACTTATATGATTCGAGCTATTCCAAGCAATGCTTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCAGTTCATGGAGCAATGGCAGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 11
--------------------------------------------------gtaact-atgtttgcttcacacaggataaggttgttacacatc--ttatta-ctggtctctattgta----ctaagttgtgaagtt---ccctattattatt-----tgc-agATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                                  ||   | || |||  |||  |    | | | || ||| |  |     |||| ||  | |  |         |||  | |||   |    |  | || || ||     ||| |||||| || ||||||||||| || || | ||||||||||||||| ||||||||||| || || || || || |||||  | |||||||||||||| || ||
gtcagtttctcttacagcattctcttcctttttgacctatttatttcttggtctttcatttttatttcggatttcaaaggttttttaaaatttgacaattatctaattttaaccaagttatctacatcgtgggataaggctttgttgttgttgtatctgccagATCCAACTTACATGATCCGGGCAATCCAAAGCAATGCATCAGATAATGTCTACTGTACACTTCTTGCTCAGAGTGCAGTCCATGGTGCAATGGCAGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA15G02400.1 (Glycine max), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
|| |   | | |  || | || | |||   || ||| | | |  |  | || |  | ||   |  || ||||                  | ||||||||||| ||||||||||| ||||| ||||| |||||||| || ||||| |||||||| || || ||||| |||||| |||||||||||||||| || ||
gtgagc-tctcttttttaaactgtatatttttattaaagaacaaaaaattgataccgat-aaaaaaaattgt-----------------ctcgcagATCCTACTTACATGATCCGTGCTATCCCAAGTAATGCATCTGATAATGTATACTGCACCCTCCTTGCCCAAAGTGCTGTTCATGGTGCAATGGCAGGATA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA07G01710.1 (Glycine max), 3'ss of exon 10
gtaa-ctatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
|| | || | ||   |  ||    |  || | |  |      | |||     ||   | || ||   | |||  |  ||  || |        | |||||| |||||||||||||| ||| ||||||| | |||||| || |||||  | ||||| || || || || |||||| |||||||||||||||| || ||
gtgagctctcttctttctactggtgcaaatggtagtgtgttacctatataaagtaaatgttctaaccaattgaaattttttctgtc-----cggtagATCCCACCTACATGATCCGTGCTGTTCCAAGTATTGCATCTGATAATGTACATTGCACTCTCCTTGCTCAAAGTGCTGTTCATGGTGCAATGGCTGGATA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: GLYMA01G00870.1 (Glycine max), 3'ss of exon 11
----gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
    ||||  |  ||       ||  | || | ||   ||||||   |   |   |       || |   |||  ||   ||| || || |  ||| ||||||| ||||| |||||||||||||||||||||||||| || ||||| || |||||||| || || || || |||||  ||||||| |||||||| || ||
gtttgtaa--agattaaaagttcatggaattatgtgtgtacacacactgaaaggagcaatggctgaaa-gagtaatgcc-ttctcttttctgttttacagATCCAACCTATATGATCCGAGCTATTCCAAGCAATGCCTCTGACAACGTGTACTGCACACTTCTTGCTCAAAGTGCAGTTCATGGAGCAATGGCAGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: AT4G29220.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
        || |  |  | |    || || || |      |  | |   |||    || |  |  |||||      |    | |  |   || ||||||| ||||||||||| |||||| |||| |||||||||||||||||||| | |||||||||  | || || || ||  ||||||| |  ||||| || ||
--------gtata-tagatatcttatgagtttttctt---ttgtgtatgtggaacataatagataaagtttcttcttcttttttggtgtctttcagATCCAACCTACATGATACGAGCTGTTCCGAGCAATGCATCAGACAATGTATGCTGCACGCTTTTAGCTCAAAGCGCGGTTCATGGAGTGATGGCTGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: AT4G26270.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                   |||   ||      || ||   | |  |      |   | | | ||   ||||  | ||  ||  | ||| || ||||||| || |||||||| |||||| |||| |||||||| ||||||||||| || || || || ||||| || |||||  | || ||||||||||| || ||
-----------------gtacaatttatatcccttgcattgcattctctccaccatgagt-ttcttgattgttcatttttcttgtcttaatttcagATCCAACATACATGATTCGAGCTGTTCCTAGCAATGCGTCAGACAATGTTTATTGTACACTTCTGGCTCAGAGTGCAGTGCACGGTGCAATGGCTGGATA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: AT5G56630.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------gtaactatgtt-tgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatt---------tgca--gATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                          | |   | || ||| |   |||| | ||  |  | | |    ||||| |   |   | | | |  |  ||  ||||      ||  | ||          | ||  |||||||| ||||||||||| ||| ||||||| ||||||||||||||||| ||||                                              
gtaagagttaaaaactttcaagatcatgagattcttatgccttttacagaa-aatttcctcatagggtttatttcctcttgttgtagGATCATTTTAAGAAGAATAAGATGGTGATGAATCTCAAATACATTGATCCTACATACATGATCCGGGCTGTTCCAAGTAATGCATCAGACAATGTTTACT----------------------------------------------

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: AT4G32840.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
     || |||||     | ||   | | || |    ||||   |||  ||      |||      |  | |||    | | |    | ||| ||||||| || |||||||||||||||||||||  ||||||||| ||||| |||||||  || || || ||||| || ||  | |||||||||||||| |||||
----gtacgtttgtcctccccaaattcaagtcgagctacatag-attcatga-----atta----gaaatatga----ctcaaaccatgttt-cagATCCGACATACATGATCCGAGCTATTCCAGCCAATGCATCTGACAACGTCTACTCAACTCTCCTTGCCCAAAGCGCAGTCCATGGTGCAATGGCTGGCTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 11
-gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
   |   |  |  | ||       | | |  || ||   | | |||  | | | ||   |   | ||  || | |  |  |||    |   ||||||||||||| ||||||||||| ||||||||| |||||||||| |||||||| |||||||| || || || || |||||| ||||||| |||||||| || ||
gtcagtgacttcagatttgtgtttgtttat-ttatttttccttttag-atttggcttagtaacaatagattctaagctatcctgagttgtcttgcagATCCTACATACATGATCCGTGCTATTCCAGGCAATGCATCTGACAATGTGTACTGCACACTCCTTGCTCAAAGTGCTGTTCATGGAGCAATGGCAGGTTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv11s0016g02850.t01 (Vitis vinifera), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
||   |||      |      |  |||  |  | |   ||    ||  |||||||       || ||||  || | ||      |||      |||||||||| || |||||||| ||| |||||||||||||||| ||||||||||| ||||| || || || || |||||| ||||||| |||||||| || ||
gtttgtatacactatctttctaatatatagaagctgggca----atggctggtct------aaccaagtgctgcactttttgtctat------cagATCCTACGTATATGATCCGTGCTGTTCCAAGCAATGCATCTGACAATGTCTATTGCACACTTCTTGCTCAAAGTGCTGTTCATGGAGCAATGGCAGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: PP1S81_165V6.1 (Physcomitrella patens), 3'ss of exon 13
----------------------------gtaactatgtttgcttcacacaggataaggttgt-tacacatcttattact---ggtctctattgtactaagttgtgaagttccctattattatt-tgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                            |    | | |||||| |           | || | ||  |||   ||| ||    |||  | ||   ||    | |||     |     || ||| ||||||||| || |||||||| |||||| ||||||||||||| || ||||| || ||||||||  |||| || || || || || ||||| || ||||| || ||
gtggccatatgcccagttgaaaacttttggttttttctttgctgcttggttctcgtgcttctatattcatgaaattccttttagtcgtttttaggcttgaatatgagtactcaccacatgattctgcagATCCAACGTACATGATTCGAGCTGTTCCAAGCAATGCTTCTGACAACGTGTACTGCACTTTGCTTGCTCATAGCGCCATCCATGGAGCTATGGCAGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: PP1S282_45V6.1 (Physcomitrella patens), 3'ss of exon 12
----------------------------------------------------------gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagtt--gtgaagttccctattat----ta--tttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                                            | || |   |  || |||| |       ||| |  ||||  |      |  |    |  |  |   ||   | |   | |  |||||    ||  | ||||||||| || || ||||| ||||| |||||||||||||| || |||||||||||||||||  ||||||| || || || || ||||| || ||||| || ||
gtacagtagccgtcaactgttctaactgttgagtgatggtgatccgtcttcctggtctacatctgtcgattttttacactgtggggaattgct-tacattctggccacgtccatggtgatcttgcattcgataagactgctcattatgccatagttctgcagATCCGACGTATATGATTCGAGCAATTCCAAGCAATGCTTCGGACAATGTCTACTGCACATTGCTGGCTCATAGCGCCATCCATGGGGCTATGGCAGGGTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: EFJ21599 (Selaginella moellendorffii), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattatt-atttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                          |   |||  || | | |||   |   || |     || | | | || |||| ||||||| || || ||||||||||| || |  ||||| || || ||||||||||||||||| || || || |||||||| || || || |||||||| |||||
-------------------------------------gtcagtgcctacgtgtttttcttgccttttctttt----ctctcaacttttgattttcagATCCAACGTATATGATCCGAGCAATCCGGAGCAACGCCTCGGACAATGTCTACTGCACTCTACTCGCTCACAGTGCGATCCACGGAGCAATGGCTGGCTA

upper sequence: LOC_Os05g44922.1 (Oryza sativa), 3'ss of exon 12
lower sequence: EFJ23976 (Selaginella moellendorffii), 3'ss of exon 11
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattatt-atttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                          |   |||  || | | |||   |   || |     || | | | || |||| ||||||| || || ||||||||||| || |  ||||| || || ||||||||||||||||| || || || |||||||| || || || |||||||| |||||
-------------------------------------gtcagtgcctacgagtttttcttgccttctctttt----ctctcaacttttgattttcagATCCAACGTATATGATCCGAGCAATCCGGAGCAACGCCTCGGACAATGTCTACTGCACTCTACTCGCTCACAGTGCGATCCACGGAGCAATGGCTGGCTA

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|8527726|gb|AU092541.1|AU092541
EST:     CCACTTCAGGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: CCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|4716362|gb|AU057478.1|AU057478
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|88838254|gb|CI373614.1|CI373614
EST:     ATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: ATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|27578240|gb|CB000935.1|CB000935
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|58679575|gb|CK068262.1|CK068262
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|56157880|gb|C27510.2|C27510
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|27576923|gb|CA999617.1|CA999617
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGA
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGA
EST: gi|8528202|gb|AU093017.1|AU093017
EST:     AAAGGACCACTTCAAGNGCAAAAAGATGGAG-TGACTATTAAATATATAG                         ATCCTACCTACATGANCCGAGCTATTCCCAAGCAATGCATCAGACAATGTC
genomic: AAAGGACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATT-CCAAGCAATGCATCAGACAATGTC
EST: gi|88838253|gb|CI373613.1|CI373613
EST:     TAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: TAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|27578068|gb|CB000763.1|CB000763
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
EST: gi|27576260|gb|CA998954.1|CA998954
EST:     GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAG                         ATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT
genomic: GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCT

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: 46 (upstream exon), 71 (downstream exon)
Score: 50

GACCACTTCAAGAGCAAAAAGATGGAGATGACTATTAAATATATAGgtaactatgt ... ttatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA
                                        tattattatttgca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactatgtttgcttcacacaggataaggttgttacacatcttattactggtctctattgtactaagttgtgaagttccctattattatttgcagATCCTACCTACATGATCCGAGCTATTCCAAGCAATGCATCAGACAATGTCTACTGCACGCTGCTGGCCCACAGTGCTATTCATGGTGCAATGGCCGGCTA

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