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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATATTGCTTGCATATGGTAGACGCCACAATTCACTTCTTAGAAGCCTTGTCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatatcttctctcagtcacgctcttgcaagtcgctatctgtgtccccttggttccttgacgtgtttttcctgagtcccacagtgaatggcaattctacattcctacttgcgttgataactcaatcttcctggactaagcacaggttttctctttttctgttcaatcag

Basic information

species Physcomitrella patens
transcript PP1S58_234V6.1
intron # 12
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|162268390|gb|FC444159.1|FC444159
EST:     TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|37838922|gb|BJ596930.1|BJ596930
EST:     TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162254782|gb|FC430759.1|FC430759
EST:     CAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: CAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162179705|gb|FC355763.1|FC355763
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162201536|gb|FC378250.1|FC378250
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162179706|gb|FC355764.1|FC355764
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162193793|gb|FC368707.1|FC368707
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162247571|gb|FC420535.1|FC420535
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162209696|gb|FC386195.1|FC386195
EST:     TTGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: TCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
EST: gi|162209695|gb|FC386194.1|FC386194
EST:     ACACTATTCTCGAG                         GTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG
genomic: ACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAG

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: 13

CATATTGCTTGCATATGGTAGACGCCACAATTCACTTCTTAGAAGCCTTGTCGTGGACGGCTCAGCAACTATTCCAATTCGAGTGTACACTATTCTCGAGgtttgaatat ... gttcaatcagGTATACAGAGTTTCAGATATGGAGCTTGTGAGAGTACTTCCCAGTGCTGAGGATGAAGTGAATGTGGCGTGTTTTCATCCCCAAGTTGGTGGCGGTCTTG




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