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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGTGCCTCCAATTCTTCATCCTCCTCTCCTCCTTCCTCCCCGGAGGTTTACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctctctccttggtccatcctttctcgtgctggcctcttcgtgtagtgtctggatgccacttgccttggttgtgctcaattttctttacccgca...

Basic information

species Physcomitrella patens
transcript PP1S62_200V6.1
intron # 1
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|208381799|gb|DC903297.1|DC903297
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100451406|gb|CJ974750.1|CJ974750
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100420949|gb|BY993540.1|BY993540
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|208377043|gb|DC910831.1|DC910831
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|6102408|gb|AW126878.1|AW126878
EST:     CCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: CCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100389005|gb|BY952209.1|BY952209
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|208346777|gb|DC901547.1|DC901547
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|208393171|gb|DC907994.1|DC907994
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100370792|gb|BY948518.1|BY948518
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100420575|gb|BY976076.1|BY976076
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|208370830|gb|DC936206.1|DC936206
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100370268|gb|BY985326.1|BY985326
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100386901|gb|BY988170.1|BY988170
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|208388769|gb|DC941778.1|DC941778
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100439952|gb|BY980321.1|BY980321
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|18328108|gb|BJ160112.1|BJ160112
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
EST: gi|100409252|gb|BY991921.1|BY991921
EST:     ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAG                         GTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA
genomic: ACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCA

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: 34 (upstream exon), 32 (downstream exon)
Score: 16

TCGTGCCTCCAATTCTTCATCCTCCTCTCCTCCTTCCTCCCCGGAGGTTTACCGCGGCGTTTATGGGCCCTGGTCTGTGGATTCTGCCGACGTTCGCGAGgtgcgctctc ... gaatttgcagGTGGTGCTGTACAGAGCAGGCTTAGTGACAGCGGCCACAACATTCGTAGCAG




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