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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC

Basic information

species Physcomitrella patens
transcript PP1S21_106V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os06g02510.2 (Oryza sativa), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgct---cgcagGTCTAGCA--CCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC---
           || ||  |   |  ||           | |||  ||   |||||   |      |  |  | || ||||| || | || |   |    | ||||   | |  ||||||||||||| ||||||||||| || ||||| |||||||||||| |||||||||||||||| | ||| ||||||||||||||||| |||   
------taatctggtg--tggatttttgctgcaactgttagtaagagctgttaggaaggaatcgcatgatgcttatggtttgtgtttgtttgatttggtgtaggtaagGTAAGCCATGGTGAAGCACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCCGCAAG

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os06g02510.3 (Oryza sativa), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgctc---gcagGTCTAGCA--CCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    || |   |   |  |   |  ||           | |||  ||   |||||   |      |  |  | || ||||| || | || |   |    | ||||   | |  ||||||||||||| ||||||||||| || ||||| |||||||||||| |||||||||||||||| | ||| ||||||||||||||||| |  
---ttcagtaatctggtgtggatttttgctgcaactgttagtaagagctgttaggaaggaatcgcatgatgcttatggtttgtgtttgtttgatttggtgtagGTAAGGTAAGCCATGGTGAAGCACAACAACGTCATCCCGAATGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCAGCCCGCCC--

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os03g37970.1 (Oryza sativa), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggt-gcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgt--tgctcgcagGTCTAGC------------ACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    |  ||     |||    | |  | |  | |  ||  | |||| || | | |||    |   |    |   | | |||  || | ||||  ||| | |||||                 |  ||||||||||| |||||||| || |||||||| |||||||||||| |||||||||||||||| | ||| |||||||||            
---atgtgctcgattgcgcgtgcatatggtctcgccgctgtatatcgggttgttggtagtcgctgatgtgaggtttgtgttcgtgtttgtgtgatgcgcacagGTAAGAAGGAGAGGAGGAGAAAATGGTGAAGCACAACAACGTTATCCCCAATGGCCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAAC------------

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G081102_T03 (Zea mays), 3'ss of exon 1
----gccctccgc--cttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctg-tgggaaaaaaaacgtagggtttctgatg-gtgttgctcgcagGTCTAG--------CACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    ||   | ||  || | || |||  | |||  | |||||   |    |   | |    |||| ||        |  || | |||  ||||| ||   | |   | |   ||        |   ||||||||||| ||||||||||| ||||| || |||||||||||| |||||||||||||||| | ||| |||||||||||          
tggagctggcggcagctcgttgattc--ttgttcccgtggtgtgct----cgttgctcgtctctgctgatgccgtcactgttgcgttgttgatgtgtacaggtaagAAGGAGAGAAAGAGGGCGAAATGGTGAAGCACAACAACGTCATCCCCAACGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAACCA----------

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G145280_T01 (Zea mays), 3'ss of exon 1
-------gccctccgc--cttgatgcttcagtagtttgcatggtgc--attgt--atcagggtttaggtc--tgtgggaaaaaaaacgtagggtttctgatggtgttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
       ||  |  ||  || | || |||  | |||  | |||||    ||||   ||  || | | | |  ||  |   |     ||| |    | ||  |||   |   | | |    ||   ||||||||||| ||||||||||| ||||| || |||||||||||| |||||||||||||||| | ||| |||||||||            
agatggagctgttggcagctcgttgattc--ttgttcccgtggtgtttgttgttcgtctcggctgacgccgttgctgttgatgtggcgttgttgatgtgcagGTAAGGAGAGGAAGAG-GGCGAAATGGTGAAGCACAACAACGTCATCCCCAACGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTCAAC------------

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G081102_T01 (Zea mays), 3'ss of exon 1
---------gccctccgc--cttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctg-tgggaaaaaaaacgtagggtttctgatg-gtgttgctcgcagGTCTAG--------CACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
         ||   | ||  || | || |||  | |||  | |||||   |    |   | |    |||| ||        |  || | |||  ||||| ||   | |   | |   ||        |   ||||||||||| ||||||||||| ||||| || |||||||||||| |||||||||||||||| | ||| ||||||               
tagggtggagctggcggcagctcgttgattc--ttgttcccgtggtgtgct----cgttgctcgtctctgctgatgccgtcactgttgcgttgttgatgtgtacagGTAAGAAGGAGAGAAAGAGGGCGAAATGGTGAAGCACAACAACGTCATCCCCAACGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTC---------------

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G409407_T01 (Zea mays), 3'ss of exon 1
-----gccctc-cgccttgatgcttcagtagtttgcatggtgcattg-tatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgtt---gctcgcagGTCTAG-------CACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
     ||  |     | || ||||    ||    | |||| || |||    |   ||||  ||   |  |    |  |||| |   ||    ||  ||    |   | ||||   |       |   ||||||||||| |||||||| || ||||| || |||||||||||| |||||||||||||||| | ||| ||||||               
tgcctgctttgatatcgtgctgctgggctaacgaggatggagctttggcggctccgttt--gttgttcagctggatgacgtggttattgcattgacgtgcagGTAAGAAGGTAAGGAAGAGGGCGAAATGGTGAAGCACAACAACGTTATCCCCAACGGGCACTTCAAGAAGCACTGGCAGAACTATGTCAAGACATGGTTC---------------

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA04G14640.1 (Glycine max), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggt--ttaggtctgtgggaaaaaaaacgtagggtttctgatgg--tgttgctcgcagGTCTAGC----ACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC--
           ||||   || |   |    | | |   ||||          |||  |   |    ||   ||| |   ||    ||||   ||||    | | |   |||     ||||||| ||||||||||| || || |||||||| ||||||   ||| |||||||||||||||||| ||| |||||||| ||||| |||||   
----------gtgattgatctgctatggttacgctttcttgtgcttatccaattaccttattacataatctaacttgttgtcgtggatgacctgttatgtgtaaggtaagCCAAAGCCATGGTTAAGCATAACAATGTTATCCCCAATGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACCTGGTTCAATCAGCCAGCACGGAA

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA16G08090.1 (Glycine max), 3'ss of exon 1
----gccctccgccttgatgcttcag-tagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC---
    |   |     | |    | ||| |  ||||  |  |  |    ||||    ||    |||| |           | |   || |  || |||   | | ||||     |   |||| |||||||||||||| || |||||||| ||||||| |||  ||||||| |||||||||| ||||||||| || || || |||||    
catagtattttaattggggtttgcagctgatttgtcttttatacatgatcatatgttgaccctgttgtttt-----ttttgttcttttattgttgtcatttgtagGTAAGATA---TGGTTAAGCATAACAACGTTATCCCCAATGGGCACTTCAGGAAACACTGGCAAAACTATGTGAAGACTTGGTTTAATCAACCAGCACGGAAG

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA04G14640.2 (Glycine max), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatgg--tgttgctcgcagGTCTAGC----ACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    |     ||||| || |  | |||  |    |    ||  |      |||  |   |    ||   ||| |   ||    ||||   ||||    | | |   |||     ||||||| ||||||||||| || || |||||||| ||||||   ||| |||||||||||||||||| ||| |||||||| ||||| |||   
-tgtttgtgattgat-ctgctatggtt-acgctttcttgtgcttatccaattaccttattacataatctaacttgttgtcgtggatgacctgttatgtgtaagGTAAGCCAAAGCCATGGTTAAGCATAACAATGTTATCCCCAATGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACCTGGTTCAATCAGCCAGCA---

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA09G34760.4 (Glycine max), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgct-cgcagGTCTAGC----ACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC--
          ||  |  |    || ||| ||   |    ||  |      |||  |   |    ||   ||| |   ||    | ||   ||  |  | | |   |||    |||||||| ||||||||||| || || || || || ||||||   ||| |||||||||||||||||| |||||||||||| ||||| |||||   
-------ttgttagttatctgctattttacactatcttgtgcttatcctattaccttattacataatctaacctgttgtcgtggttgactttaatgtgtaaggtaagCCAAAACCATGGTTAAGCATAACAATGTTATCCCAAACGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACTTGGTTCAATCAGCCAGCACGGAA

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA09G34760.3 (Glycine max), 3'ss of exon 2
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgct-cgcagGTCTAGC----ACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    |     ||  |  |    || ||| ||   |    ||  |      |||  |   |    ||   ||| |   ||    | ||   ||  |  | | |   |||    |||||||| ||||||||||| || || || || || ||||||   ||| |||||||||||||||||| |||||||||||| ||||| |||   
--gttgattgttagttatctgctattttacactatcttgtgcttatcctattaccttattacataatctaacctgttgtcgtggttgactttaatgtgtaagGTAAGCCAAAACCATGGTTAAGCATAACAATGTTATCCCAAACGGACACTTCCGTAAGCACTGGCAGAACTATGTGAAGACTTGGTTCAATCAGCCAGCA---

upper sequence: PP1S21_106V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT3G49010.1 (Arabidopsis thaliana), 3'ss of exon 1
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgat-ggtgttgctcgcagGTCTAGCACCATGG--TGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
    |     |||| | || ||   ||  |||      |  |      |||||    |     |    |     || || |||||| | ||||  | |   |  |      | |   ||||||| ||||| || || ||||||||||||||||| ||| |||||||||| ||||| | ||| |||||||||||||| ||  | 
--ttttgtttttgaagtttgaggttttatcatttgatttccttgagctgtttaaagtttcatcatttgatttaaagtgtgtctgattgatgttttttggcagCTTGAGTTGAAGAAATGAAGCACAACAATGTTATCCCCAATGGTCACTTCAAAAAGCACTGGCAGAATTATGTCAAGACATGGTTCAACCAGCCTGCCAG-

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|18357023|gb|BJ189082.1|BJ189082
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208397822|gb|DC916157.1|DC916157
EST:     TGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18345554|gb|BJ177597.1|BJ177597
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67718316|gb|BJ968575.1|BJ968575
EST:     GGCCTCCATCGCCAGCGGTGCTCCGCANCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAANCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GGCCTCCATCGCCAGC-GTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67726726|gb|BJ976985.1|BJ976985
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67719256|gb|BJ969515.1|BJ969515
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208399919|gb|DC904973.1|DC904973
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18367825|gb|BJ199908.1|BJ199908
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|19790040|gb|BQ041663.1|BQ041663
EST:     TGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67702544|gb|BJ962777.1|BJ962777
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67710010|gb|BJ965817.1|BJ965817
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162244824|gb|FC420176.1|FC420176
EST:     TACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18345907|gb|BJ177950.1|BJ177950
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18345979|gb|BJ178022.1|BJ178022
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208356323|gb|DC957357.1|DC957357
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67716621|gb|BJ966881.1|BJ966881
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162244825|gb|FC420177.1|FC420177
EST:     CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162210890|gb|FC386988.1|FC386988
EST:     CGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18358075|gb|BJ190134.1|BJ190134
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|6102215|gb|AW126685.1|AW126685
EST:     GTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67724080|gb|BJ974339.1|BJ974339
EST:     CCATCGCCAGCGTGCTCCGCAGCCCNTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67726808|gb|BJ977067.1|BJ977067
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67701904|gb|BJ962137.1|BJ962137
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18352135|gb|BJ184189.1|BJ184189
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGAATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162212095|gb|FC388205.1|FC388205
EST:     ATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: ATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67703758|gb|BJ963991.1|BJ963991
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162207356|gb|FC383913.1|FC383913
EST:     CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCCAATGGTCACTTCA
genomic: CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATT-CCCAATGGTCACTTCA
EST: gi|67712796|gb|BJ966245.1|BJ966245
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67718238|gb|BJ968497.1|BJ968497
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67577971|gb|BJ950138.1|BJ950138
EST:     CGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18374249|gb|BJ205827.1|BJ205827
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67709760|gb|BJ965576.1|BJ965576
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67571334|gb|BJ944158.1|BJ944158
EST:     GCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18357231|gb|BJ189290.1|BJ189290
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162212094|gb|FC388204.1|FC388204
EST:     TGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162207357|gb|FC383914.1|FC383914
EST:     CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208386414|gb|DC937081.1|DC937081
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|19780298|gb|BQ039543.1|BQ039543
EST:     ATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: ATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208357736|gb|DC902288.1|DC902288
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162222992|gb|FC399935.1|FC399935
EST:     CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18351568|gb|BJ183620.1|BJ183620
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67727557|gb|BJ977816.1|BJ977816
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|208378243|gb|DC918864.1|DC918864
EST:     CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162265262|gb|FC440185.1|FC440185
EST:     CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162212150|gb|FC388260.1|FC388260
EST:     GCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162271728|gb|FC448653.1|FC448653
EST:     GCCCCTCTTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162271729|gb|FC448654.1|FC448654
EST:     GCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|18366384|gb|BJ198463.1|BJ198463
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|162265263|gb|FC440186.1|FC440186
EST:     CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: CATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67507833|gb|BJ940710.1|BJ940710
EST:     GCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: GCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
EST: gi|67701915|gb|BJ962148.1|BJ962148
EST:     TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAG                         GTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA
genomic: TGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAA

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: 29 (upstream exon), 35 (downstream exon)
Score: 70

CGCTCCCCCTGATAGAGGAAGCAAGTGTGATACACACTCTCTTTCTCCCCTGGCCTCCATCGCCAGCGTGCTCCGCAGCCCCTCCTGCGTACTCCTGGAGgtactccccc ... ttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC
                                  ttctgat  putative branch site (score: 70)
                  aaaaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccctccgccttgatgcttcagtagtttgcatggtgcattgtatcagggtttaggtctgtgggaaaaaaaacgtagggtttctgatggtgttgctcgcagGTCTAGCACCATGGTGAAGCATAACAACGTCATTCCCAATGGTCACTTCAAGAAGGACTGGCAGAACTATGTGAGGACTTGGTTCAACCAGCCCGCACGC

- - - - - - - tgcttca
- - - - - - - - - - - - - - - -tggtgca