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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaaaggttttgttactatcgttgttttgtatttttgtattacttttggaagcctttcgtcgttgagtatctctgaaggttcagtcgtgattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGCGACCTAGTTATCATTCCTGCGGGAGTGCCCCGTAAGCCTGGAATGACCC

Basic information

species Physcomitrella patens
transcript PP1S91_247V6.1
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|18342835|gb|BJ174871.1|BJ174871
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100429095|gb|BY977937.1|BY977937
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100400911|gb|BY973005.1|BY973005
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|208357611|gb|DC934091.1|DC934091
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100392213|gb|BY953250.1|BY953250
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100362998|gb|BY984306.1|BY984306
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|67717798|gb|BJ968057.1|BJ968057
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|18368971|gb|BJ201056.1|BJ201056
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162178434|gb|FC354158.1|FC354158
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162181211|gb|FC357630.1|FC357630
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162151333|gb|FC327462.1|FC327462
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|18370101|gb|BJ201703.1|BJ201703
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100402373|gb|BY954803.1|BY954803
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|67570373|gb|BJ943197.1|BJ943197
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|67570755|gb|BJ943579.1|BJ943579
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100396841|gb|BY953854.1|BY953854
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|208368318|gb|DC935673.1|DC935673
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162232671|gb|FC409222.1|FC409222
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|208374362|gb|DC940691.1|DC940691
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|67709549|gb|BJ965365.1|BJ965365
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100437341|gb|BY961472.1|BY961472
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|18363627|gb|BJ195699.1|BJ195699
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|67717850|gb|BJ968109.1|BJ968109
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|19784263|gb|BQ040147.1|BQ040147
EST:     CGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: CGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100445737|gb|CJ970036.1|CJ970036
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162214048|gb|FC389886.1|FC389886
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|208392060|gb|DC941908.1|DC941908
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|18363195|gb|BJ195267.1|BJ195267
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|162209149|gb|FC385368.1|FC385368
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|100427479|gb|BY977518.1|BY977518
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
EST: gi|18344301|gb|BJ176341.1|BJ176341
EST:     GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAAC                         GTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC
genomic: GTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGC

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: 32 (upstream exon), 32 (downstream exon)
Score: 12

GATGAAGCTCAACCCCTTGGTTACTGATCTCTCCTTGTACGATATCGCTGGTACCCCCGGCGTCGCCTGCGACATCAGCCACATTAACACCGGTGCCAACgtgagtggcg ... gattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGCGACCTAGTTATCATTCCTGCGGGAGTGCCCCGTAAGCCTGGAATGACCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttggaagcctttcgtcgttgagtatctctgaaggttcagtcgtgattttacagGTAGAGGGATTTGCCGGAGAAGAGGATCTTGCAAAGGCGTTGAAGGGATGCGACCTAGTTATCATTCCTGCGGGAGTGCCCCGTAAGCCTGGAATGACCC
                                            tgatttta  TA-rich tract