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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTATTCAAGCTGCGTCGTTGATAATCCTTGGTCCCTATGTTGACTACTTCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctgatactgcactgaagttcttgatttgcgtgcttcatacattgttctgttctttctaatagctaactctgctactctgcgaaaacaagattatgtgctaaactgtatcgttgaccctgcag

Basic information

species Physcomitrella patens
transcript PP1S15_388V6.3
intron # 5
splice site 5'
intron type U2

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|37825662|gb|BJ583728.1|BJ583728
EST:     CTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: CTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|67699821|gb|BJ960054.1|BJ960054
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|162262230|gb|FC437141.1|FC437141
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|162244248|gb|FC420978.1|FC420978
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|37839052|gb|BJ597060.1|BJ597060
EST:     ATGGCCGCAACATTTTGGACTATTCNTACAGCATGGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: ATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|37850347|gb|BJ608355.1|BJ608355
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|67693024|gb|BJ953257.1|BJ953257
EST:     GCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: GCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|37823729|gb|BJ581795.1|BJ581795
EST:     TCNTCAATGGCCGCAACATTTTGGACTATTCTTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|208366176|gb|DC955277.1|DC955277
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|162214631|gb|FC390662.1|FC390662
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|67569756|gb|BJ942580.1|BJ942580
EST:     CATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: CATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|18335982|gb|BJ168003.1|BJ168003
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|37843863|gb|BJ601871.1|BJ601871
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCNTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
EST: gi|19788745|gb|BQ040893.1|BQ040893
EST:     TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTG                         ATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG
genomic: TCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctg ... gaccctgcagATGTTTATATTGCTCTCATGCGTTCTTGCTGTATTCTGCAACATCAGCCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTATTCAAGCTGCGTCGTTGATAATCCTTGGTCCCTATGTTGACTACTTCCTCAATGGCCGCAACATTTTGGACTATTCCTACAGCATTGGAGCTGTGgtaagtcctgatactgcactgaagttcttgatttgcgtgcttcatacattgttctgttctttctaatagctaactctgctactctgcgaaaacaagattatgtgctaaactgtatcgttgaccctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT