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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctatcgctttcactctcgcattagcctcccctcccttgtctctctctctctctctctctcccgttttcctcctatttgtgtttcccttctcgctgcggattttggtgttggttttttaattttttttgttaatttgtggagcttacgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTGGGATCGGGAGCGTTGCTGGTGCTGCCCGAGCGCAAGCAGAACATTGCGC

Basic information

species Physcomitrella patens
transcript PP1S98_136V6.1
intron # 1
splice site 3'
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|67574583|gb|BJ947407.1|BJ947407
EST:     GCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: GCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67701028|gb|BJ961261.1|BJ961261
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162263118|gb|FC439784.1|FC439784
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162276312|gb|FC452419.1|FC452419
EST:     CGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: CGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67578873|gb|BJ951040.1|BJ951040
EST:     AGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: AGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67507607|gb|BJ940488.1|BJ940488
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162226370|gb|FC403286.1|FC403286
EST:     CTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: CTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67572078|gb|BJ944902.1|BJ944902
EST:     ATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: ATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67571413|gb|BJ944237.1|BJ944237
EST:     ATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: ATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|37847166|gb|BJ605174.1|BJ605174
EST:     TCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162202536|gb|FC380051.1|FC380051
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162226371|gb|FC403287.1|FC403287
EST:     CTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: CTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67508677|gb|BJ941538.1|BJ941538
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67694743|gb|BJ954976.1|BJ954976
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67578161|gb|BJ950328.1|BJ950328
EST:     GCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: GCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67695443|gb|BJ955676.1|BJ955676
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162256658|gb|FC433176.1|FC433176
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67698000|gb|BJ958233.1|BJ958233
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67578455|gb|BJ950622.1|BJ950622
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67571784|gb|BJ944608.1|BJ944608
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162202537|gb|FC380052.1|FC380052
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|18366775|gb|BJ198854.1|BJ198854
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|162210330|gb|FC386210.1|FC386210
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
EST: gi|67695152|gb|BJ955385.1|BJ955385
EST:     TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAG                         GTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG
genomic: TCGCAATTCTATCTGGACCAGGGGAAGCTAATTCCATCACCCCCCTTGAGgttctatcgc ... cgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggtgttggttttttaattttttttgttaatttgtggagcttacgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTGGGATCGGGAGCGTTGCTGGTGCTGCCCGAGCGCAAGCAGAACATTGCGC
                                       agcttac  putative branch site (score: 3)
     tgttggttttttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctatcgctttcactctcgcattagcctcccctcccttgtctctctctctctctctctctcccgttttcctcctatttgtgtttcccttctcgctgcggattttggtgttggttttttaattttttttgttaatttgtggagcttacgaagcgtagGTGCAGCGGATTCAATGGCGTCGACCTCTGCGTGTGTGGTGTCATCTGTTGGGATCGGGAGCGTTGCTGGTGCTGCCCGAGCGCAAGCAGAACATTGCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC