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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atataactgtgcgcggctcccctttgattacccttatttgttaaattcagctagtttatgctactgtataacgatgttttctttttctttttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCCGTCATTGAGAACGAG

Basic information

species Physcomitrella patens
transcript PP1S31_130V6.1
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|100390810|gb|BY989293.1|BY989293
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|67716934|gb|BJ967193.1|BJ967193
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162184555|gb|FC360029.1|FC360029
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162176071|gb|FC351865.1|FC351865
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162156787|gb|FC333599.1|FC333599
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|208358154|gb|DC934487.1|DC934487
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGCTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162253297|gb|FC428891.1|FC428891
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162152362|gb|FC328549.1|FC328549
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162195573|gb|FC371874.1|FC371874
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100354739|gb|BY983541.1|BY983541
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|208359157|gb|DC934660.1|DC934660
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100382598|gb|BY986875.1|BY986875
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGGAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|18348039|gb|BJ180086.1|BJ180086
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|18352228|gb|BJ184282.1|BJ184282
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162159887|gb|FC336140.1|FC336140
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|208397777|gb|DC912000.1|DC912000
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100394903|gb|BY989983.1|BY989983
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100406754|gb|BY955718.1|BY955718
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162242562|gb|FC419217.1|FC419217
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100353131|gb|BY945621.1|BY945621
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|208370345|gb|DC931757.1|DC931757
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162187277|gb|FC363227.1|FC363227
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|18330321|gb|BJ162327.1|BJ162327
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162162412|gb|FC339169.1|FC339169
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|162151814|gb|FC328060.1|FC328060
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100392220|gb|BY953254.1|BY953254
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100386028|gb|BY969967.1|BY969967
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
EST: gi|100446745|gb|CJ971044.1|CJ971044
EST:     ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAG                         ACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC
genomic: ATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCC

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: 35 (upstream exon), 35 (downstream exon)
Score: 23

GGAAGCCGAGGCTATTGACGAGGACGAGGATTACATCCGCAGTGGTGATGATAACCGTGTCGCTGTGACGATTATTACTGGTTTTCTCGGCTCCGGGAAGgtacgcattg ... ttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCCGTCATTGAGAACGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagctagtttatgctactgtataacgatgttttctttttctttttccttccagACTACGCTGTTGAATCACATTCTCACCATGCAGCACGGAAAACGGATTGCCGTCATTGAGAACGAG
                    gtataac  putative branch site (score: 23)
                          cgatgttttctttttc  CT-rich tract
                               ttttctttttcttttt  TA-rich tract