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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccattgttccctttccatattcatttgcagtttgcatcaacaaatagttgccagatgccgatgaagaagtctgattttattcgtgacttatgcag

Basic information

species Physcomitrella patens
transcript PP1S426_34V6.1
intron # 8
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|162236818|gb|FC412561.1|FC412561
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|208369961|gb|DC948084.1|DC948084
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|162217444|gb|FC393120.1|FC393120
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|18335121|gb|BJ167139.1|BJ167139
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|162160225|gb|FC337122.1|FC337122
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|208347818|gb|DC917567.1|DC917567
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|100447366|gb|CJ971665.1|CJ971665
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGANAATGTGGTGGAGACNANCATGACTGGAAGGAGATGTTC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGA-GGAGATGTTC
EST: gi|208367118|gb|DC947824.1|DC947824
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|7582943|gb|AW699107.1|AW699107
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|162236819|gb|FC412562.1|FC412562
EST:     GTAATTACTGCGCTCTACATCCTCCANACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTNGGAG-AGATGTTC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACT-GGAGGAGATGTTC
EST: gi|162217443|gb|FC393119.1|FC393119
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|208360526|gb|DC950072.1|DC950072
EST:     GTAATCACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|19790032|gb|BQ041658.1|BQ041658
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|37846197|gb|BJ604205.1|BJ604205
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
EST: gi|208378639|gb|DC903670.1|DC903670
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGA
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGA
EST: gi|208374026|gb|DC944759.1|DC944759
EST:     GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAG                         ATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC
genomic: GTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCC

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: 21 (upstream exon), 34 (downstream exon)
Score: 8

GAAATATATTATTCGTAATTACTGCGCTCTACATCCTCCAAACATCGAAGGACAAGTTAGCCAGgtttgaccat ... acttatgcagATTTTTGAAGGAGAATGTGGTGGAGACGAGCATGACTGGAGGAGATGTTCCTAAAGCGGACTAAAGCAATTATCTGGTGTTCTGACTTAAAGTTGTGCCT




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