Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaattcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG

Basic information

species Physcomitrella patens
transcript PP1S249_49V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os07g32800.1 (Oryza sativa), 3'ss of exon 5
ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttg-atgggttacttaattcattgaatgtcgcaccattca-actttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGA--GATGTTATCAACTG
                  | | | || || | |||  | |   ||||   ||    |||    ||  ||   |           || || || | |  |||||| || |||||||  | || ||||| ||  |||||||||||||||| ||||| ||| | ||||||||||| || ||||| |||||      || ||  |   
-----------------gtaaattcattgttcttgatttgtcattgtcatatcacctacccttttggtttccttatattttgcgcatacattctattggcagCTTCTTTGATGTCTGCAATCTACGAAGAGAACAAGGATGAGGACGGCTTCCTCTACATGACTTACAGTGGCGAGAACACATTCGGCTCTGCGTAATTCAT--

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os04g53240.2 (Oryza sativa), 3'ss of exon 6
---------------------------------------ttgattctagtct----gtgtattattgcactgctgttgtgtgggatttgttgatgggt-tacttaattcattgaatgtcgcaccattcaactttgtttg---tgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG-
                                         || | | |||     || || || ||||  | |  ||       | | |  | |    | | |  |||||   || ||    |||   |||||||| |   |||||||||| |||||||  | |||||||| ||  ||||||||||||| || ||||| ||| | || |||||||| || |||||||| || | || | |   |   
gtctgaaaatcccttgaatcattttcctttgaaaacacaaggactttggtcgaatagtatactactgcatggtttatgatcccagtatctcaaagaacctgcatggttcatgttatctcatttcatc--actttgttggatttgcagCTGCTCTGATGTCCGCAATTTACGAGGAGAACAAGGATGAGGATGGGTTCCTCTACATGACCTACAGTGGCGAGAACACCTTTGG-GCTGCTCTAGGCGCG

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G076826_T01 (Zea mays), 3'ss of exon 6
--------------------------------------ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaat--tcattgaatgtcgcac-------cattcaactttgtttg--------------tgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG-
                                       ||||| |  |   | ||  | |  |  ||  | ||   | |||||  ||   | | |   ||  ||| |  || |  |         || |  | |||  |||              |||||||||| ||||||| || || || || ||  ||||||||||||| |||||||| ||| | || ||||||||||| ||||||||||| | |  | |  |  | 
gtctggaaaataaatacagagacaacatacttctgactctgattttgcttcctataagaattgatggcattcgttgagcatttggggacatgatcccccatcctcacttgatcttacttgcattctcacttgattttacttgcttccctgaacctgtgcagCTGCTCTGATGTCTTCAATCTATGAAGAGAACAAGGATGAGGATGGATTCCTCTACATGACCTACAGTGGTGAGAACACCTTCGG-GCTCCTCTAGATGGC

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G419694_T05 (Zea mays), 3'ss of exon 5
-----------------------------ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaat-tcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG-
                              |  |   | ||||  | |  || |  |         ||| ||| |  ||   | | || | | ||| |  || |  |     |    | |    ||||||||||| ||||||| || || || || ||  ||||||| ||||| || ||||| ||| | |||||||||||||| ||||||||||||  || | |  |  | 
gtctggaaagtcaatgcagaaacaacatgctcttctgactctgattttgcttcctataagaactgatggtattcggggacacgatcctcattctcacttgattttac-ttgcttgcttgtacccgtgcagCTGCTCTGATGTCTTCAATCTATGAAGAGAACAAGGACGAGGATGGGTTCCTCTACATGACTTACAGTGGTGAGAACACCTTCGGAC-TGCTCTAGATGGC

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G134613_T08 (Zea mays), 3'ss of exon 1
----ttgattctagt-ctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaattcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG-
      ||   |||| |  | | || |   ||   ||||| |    | |     |      || ||   |  ||     ||| |    |    ||||   |||||||||| |||||||  |||| ||||| ||  ||||||| |||||||| ||||| ||| | || ||||| || || ||||||||||| | |||| | |   | 
gtaccggacagtagttccttctgttgtcataccagtgttggggaaaaat----aaaacaaaacctaccacggtgccccccgcccgtaacgttgttgtccctgcagCTGCTCTGATGTCCGCCATCTACGAGGAGAACAAGGACGAGGACGGCTTCCTCTACATGACGTACAGCGGCGAGAACACCTTCGG-GCTGTTCTGAGTGGG

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv19s0090g00580.t01 (Vitis vinifera), 3'ss of exon 5
-ttgattctagt--ctgtgtattattgcactgctgttgtgtgggat-ttgttgatgggttacttaattcattgaatgtcgcaccattcaactttgt-ttgt-gcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG--
 |       | |  || | || ||||  | | |   | |    ||| | |||  ||      || |||  ||  || ||      ||  | ||||| || |  ||||||| ||||||||  |||| || || ||| |||| |||||||| || ||||||||  | ||||||||||| |||||||| || |||  |  |   ||| |  
gtgagaaagaattcctttttaatattcaaatacacatatcgatgatgtagtttctgtaactatttattatttatat-tcatttatttgtattttgtgttatcacagCTGCCATGATGTCTGCCATCTATGAGGAAAACAAAGATGAGGATGGTTTCCTGTATATGACTTACAGTGGGGAAAACACATTTGGA--TCATTCTAACGGAA

upper sequence: PP1S249_49V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EDO98830 (Chlamydomonas reinhardtii), 3'ss of exon 4
---ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaattcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTT-ATCAACTG
     |   |    | | |   | | |||| || || |||     |   |   |  | |    |  || |||   | | | || | ||||    |     |||| ||  | ||||||||||| || || || ||||||||||||||||| || |||||| | || ||||| || || ||||| ||||| |  |   | || || 
cagcagggccagagccgggcgctgtggcaccgccgt-gtgcaccgtcgctgtctttgctcaccacgtccttg--cgcccctccttgcaacccactcctcacagCCGCGCTCATGTCATCCATCTATGAGGACCACAAGGATGAGGACGGCTTTCTGTACATCACCTACAGCGGCGAGAACACGTTCGGTGCCGGGGAGCAGCT-

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|162238575|gb|FC418964.1|FC418964
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|7287227|gb|AW599714.1|AW599714
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|6166812|gb|AW145076.1|AW145076
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|18365712|gb|BJ197789.1|BJ197789
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162269518|gb|FC445074.1|FC445074
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|37826926|gb|BJ584938.1|BJ584938
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162263756|gb|FC438921.1|FC438921
EST:     TTTTGAGAAGGCCATTTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|22491699|gb|BU051622.1|BU051622
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162265957|gb|FC442960.1|FC442960
EST:     TTTTGAGAAGGCCATTTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|208372756|gb|DC952643.1|DC952643
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162201747|gb|FC377499.1|FC377499
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|18325320|gb|BJ157316.1|BJ157316
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|22132370|gb|BQ827117.1|BQ827117
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162243663|gb|FC420679.1|FC420679
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|37835281|gb|BJ593293.1|BJ593293
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162260417|gb|FC435043.1|FC435043
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|7286680|gb|AW599167.1|AW599167
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|37845489|gb|BJ603497.1|BJ603497
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|67570411|gb|BJ943235.1|BJ943235
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|67693411|gb|BJ953644.1|BJ953644
EST:     TTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|6167274|gb|AW145538.1|AW145538
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|67693686|gb|BJ953919.1|BJ953919
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162226589|gb|FC402491.1|FC402491
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162244437|gb|FC422610.1|FC422610
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162260403|gb|FC435042.1|FC435042
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|67570144|gb|BJ942968.1|BJ942968
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162237156|gb|FC413523.1|FC413523
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|15327183|gb|BI487711.1|BI487711
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162238574|gb|FC418963.1|FC418963
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|208375486|gb|DC937001.1|DC937001
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|7583876|gb|AW699778.1|AW699778
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|208392197|gb|DC957276.1|DC957276
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162237157|gb|FC413524.1|FC413524
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162244436|gb|FC422609.1|FC422609
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|18347837|gb|BJ179884.1|BJ179884
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|22492458|gb|BU052381.1|BU052381
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|162263757|gb|FC438922.1|FC438922
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
EST: gi|37823882|gb|BJ581948.1|BJ581948
EST:     TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAG                         CTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC
genomic: TTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCC

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: 71

TTGACGGTTGGGCAGTTTGTCTACGTCATAAGAAAGCGCATCAAGTTAAGTTCTGAGAAGGCCATCTTCATTTTCGTGAAGAATGTTTTGCCTCCAACAGgtacgtaact ... gtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatgggttacttaattcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG
           acttaat  putative branch site (score: 71)
                                         ctttgttt  putative PPT
         ttacttaattcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgattctagtctgtgtattattgcactgctgttgtgtgggatttgttgatgggttacttaattcattgaatgtcgcaccattcaactttgtttgtgcagCTGCTATGATGTCATCCATTTACGATGAACACAAGGATGAGGACGGATTCCTGTACTTTACTTACAGTGGTGAAAACACCTTCGGAGATGTTATCAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG