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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGAGGGCGAGGACTTCATTTCGACGTGGGAGGAGGTTCACGACACTTTTGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatattcgttccatttttgtgtttgtcgtacttcagaacggtgctctcgtactctctatttatacttcatttactataattgccactaacccttgt...

Basic information

species Physcomitrella patens
transcript PP1S31_150V6.5
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S31_150V6.5 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os06g48750.1 (Oryza sativa), 5'ss of exon 3
GCCGAGGGCGAGGACTTCATTTCGACGTGGGAGGAGGTTCACGACACTTTTGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtag---tatattcgttccatttttgtgtttgtcgtacttcagaacggtgctctcgtactctctatttatacttcatttactataattgccactaacccttgt
|  ||   |||||| ||| |  |  | |  || || ||||| || | ||||||||  |||||||| || ||||||||||| ||||| || || |||||||||||   |||| || |||    ||| | ||||| ||  ||   |   |  || |  | |     |  | |  ||   ||  ||||                  
GGTGAAACCGAGGAGTTCTTCACATCTTATGATGAAGTTCATGAGAGTTTTGATGACATGGGTCTCCAAGAGAACCTTCTCAGAGGCATCTATGCCTATGgtaggtttataatctttcgtgctttttttttgt-gtgtttgccatttgaactgttattcatcagacctttttttttgtt-ttatag-----------------
















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|208388678|gb|DC941505.1|DC941505
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100388568|gb|BY952170.1|BY952170
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100405929|gb|BY991454.1|BY991454
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|67718483|gb|BJ968742.1|BJ968742
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100362821|gb|BY947545.1|BY947545
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|67718047|gb|BJ968306.1|BJ968306
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208375488|gb|DC937003.1|DC937003
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208346400|gb|DC905305.1|DC905305
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208400626|gb|DC904602.1|DC904602
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100357901|gb|BY946631.1|BY946631
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|67718174|gb|BJ968433.1|BJ968433
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100373426|gb|BY949320.1|BY949320
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208359138|gb|DC934641.1|DC934641
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|18330218|gb|BJ162224.1|BJ162224
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGG
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGG
EST: gi|208392366|gb|DC907885.1|DC907885
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100394940|gb|BY990001.1|BY990001
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208388645|gb|DC941486.1|DC941486
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208353687|gb|DC938754.1|DC938754
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100393761|gb|BY953501.1|BY953501
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208395856|gb|DC911865.1|DC911865
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100401889|gb|BY954761.1|BY954761
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100403374|gb|BY991171.1|BY991171
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208397355|gb|DC908245.1|DC908245
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|162198132|gb|FC373082.1|FC373082
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100429913|gb|BY978152.1|BY978152
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|67718173|gb|BJ968432.1|BJ968432
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|162218220|gb|FC395018.1|FC395018
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100403879|gb|BY955147.1|BY955147
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100447413|gb|CJ971712.1|CJ971712
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTCTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|162221100|gb|FC397741.1|FC397741
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100367028|gb|BY948332.1|BY948332
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100396603|gb|BY990207.1|BY990207
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|208350849|gb|DC913453.1|DC913453
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|67507940|gb|BJ940815.1|BJ940815
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
EST: gi|100386440|gb|BY951236.1|BY951236
EST:     TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATG                         GTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA
genomic: TGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatatt ... acctgtacagGTTTTGAGAAGCCATCTGCTATCCAACAGCGTGGAATCGTTCCCTTCACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCGAGGGCGAGGACTTCATTTCGACGTGGGAGGAGGTTCACGACACTTTTGATGTGATGGGTCTACATGAGAACCTTCTGAGAGGAATTTACGCCTATGgtagtatattcgttccatttttgtgtttgtcgtacttcagaacggtgctctcgtactctctatttatacttcatttactataattgccactaacccttgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA