Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAACAAGAAAAGGATGTCAGACTTGGTGACTGGAAAACTGCCGAAATTGAGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacataatttttaaacttgacttagtatggatgttttctaacataggttcatggaaatagtcacaatctattgtgaatacttaggtctactacag...

Basic information

species Physcomitrella patens
transcript PP1S207_28V6.1
intron # 6
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|162272681|gb|FC448307.1|FC448307
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATNCA-CATGACGG
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagAT-CAACATGACGG
EST: gi|208383342|gb|DC907517.1|DC907517
EST:     AGATNCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACG
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACG
EST: gi|208394358|gb|DC904178.1|DC904178
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGGACGGAGAAGGATTACC
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATG-ACGGAGAAGGATTACC
EST: gi|162217120|gb|FC392484.1|FC392484
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|100395348|gb|BY953692.1|BY953692
EST:     GAT-CTGAATACATTCCAGTTGCTGTCTGNCAAA-CCAGTGGTATATCTG                         ATCAACATGACGGAAGAGGGATTAC-AACGGAAGAAAAAC
genomic: GATTCTGAATACATTCCAGTTGCTGTCTG-CAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGA-GAAGGATTACCAACGGAAGAAAAAC
EST: gi|162263698|gb|FC439623.1|FC439623
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|162202372|gb|FC379991.1|FC379991
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGG
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGG
EST: gi|208399872|gb|DC904954.1|DC904954
EST:     AAATTCTGAATACATTCTAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGAT-ACCAACG
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACG
EST: gi|37828408|gb|BJ586420.1|BJ586420
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|208374509|gb|DC944979.1|DC944979
EST:     AGATTCTGNATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATNTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|208352669|gb|DC921403.1|DC921403
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|67720060|gb|BJ970319.1|BJ970319
EST:     CTGCAAAACCAGTGGTATATNTG                         ATCACCATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: CTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|162217121|gb|FC392485.1|FC392485
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|162263697|gb|FC439622.1|FC439622
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|162278437|gb|FC454523.1|FC454523
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGG
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGG
EST: gi|208353452|gb|DC946316.1|DC946316
EST:     AGATTCTGAATACATTCCAGNTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|67697251|gb|BJ957484.1|BJ957484
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|208378223|gb|DC918844.1|DC918844
EST:     GATTCTGAATACANTTCTAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: GATTCTGAATACA-TTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|37826854|gb|BJ584866.1|BJ584866
EST:     TCCAGTTGCTGTCTGCAAANCCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: TCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|162175835|gb|FC352137.1|FC352137
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
EST: gi|37824831|gb|BJ582897.1|BJ582897
EST:     AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTG                         ATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT
genomic: AGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCT

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: 12

GAAACAAGAAAAGGATGTCAGACTTGGTGACTGGAAAACTGCCGAAATTGAGATTCTGAATACATTCCAGTTGCTGTCTGCAAAACCAGTGGTATATCTGgtaagtacat ... acctctgcagATCAACATGACGGAGAAGGATTACCAACGGAAGAAAAACAAGTGGCTAGCTAAGATTCATGCTTG




<











<


<