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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGAGGAGCAGAAAAAGCTCGATGTCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttcaagctttttacttcgtgttagatcatccgtgagttgtgggttatgagtgtggatgaagtggaccgggtagttagctgtttagtgggattt...

Basic information

species Physcomitrella patens
transcript PP1S1_300V6.1
intron # 4
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|18325673|gb|BJ157670.1|BJ157670
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100391045|gb|BY953055.1|BY953055
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100404176|gb|BY955293.1|BY955293
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100396704|gb|BY953785.1|BY953785
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100445852|gb|CJ970151.1|CJ970151
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208373427|gb|DC931872.1|DC931872
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208393616|gb|DC904332.1|DC904332
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|162278601|gb|FC454999.1|FC454999
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100372971|gb|BY949374.1|BY949374
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100352928|gb|BY945520.1|BY945520
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208391526|gb|DC937674.1|DC937674
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208352123|gb|DC906268.1|DC906268
EST:     TCTTGTCGAATCATGTCTCCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208378504|gb|DC927201.1|DC927201
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208384630|gb|DC907103.1|DC907103
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|100353087|gb|BY945599.1|BY945599
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|67570889|gb|BJ943713.1|BJ943713
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAANAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208380958|gb|DC903870.1|DC903870
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208350215|gb|DC901599.1|DC901599
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208376930|gb|DC910792.1|DC910792
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|208378151|gb|DC902624.1|DC902624
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|162193916|gb|FC371729.1|FC371729
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
EST: gi|67575305|gb|BJ948129.1|BJ948129
EST:     TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACA                         AATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT
genomic: TCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttc ... gtttttgcagAATGTTCTTGTGTCTGAAGAAAACGAAGAAGCGATTTTTGTAGAGTCCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCGAGGAGCAGAAAAAGCTCGATGTCTTGTCGAATCATGTCTTCATCAACGCTCTCGTTAGCAGTGGACGCACAgtaagtcttcaagctttttacttcgtgttagatcatccgtgagttgtgggttatgagtgtggatgaagtggaccgggtagttagctgtttagtgggattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA