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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccttgtgacatcataacacatgcaaccgtttggatgtatgcatgtcgaggttatctttttatggtggtctaaacctgcgctgcctgttgggagtgtatttacagtttattgtggcttagaacttggatgttagggtaatcaacgtctctttttcgttttcagGTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCTCAGAACACTTTTGCATTGTTGACCACCTTCAACGAGATTGACAT

Basic information

species Physcomitrella patens
transcript PP1S154_6V6.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S154_6V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: AT5G55070.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaagtccttgtgacatcataacacatgcaaccgtttggatgtatgcatgtcgaggttatctttttatggtggtctaaacctgcgctgcctgttgggagtgtatttacagtttattgtggcttagaacttggatgttagggtaatcaacgtctctttttcgttttcagGTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCTCAGAACACTTTTGCATTGTTGACCACCTTCAACGAGATTGACAT
                                         ||||| |      |    |  || | |  |  | |||  || || ||  | ||     || |   | ||  | ||  |      |  || |||| ||   |    ||| ||  |          ||||| || |||||  |||| || ||  | ||||| ||  |||||||||| ||||||||||||||||| ||| |||| || ||||| ||  |||| ||
-----------------------------------------gtatgaaaactatgtcatttattctttacttatataatgctccg-tgtgttttctctatgaaagaaaagcattttacgttcacaagatttgatgatatcat--ctaacatcgatg---------cagGTTCCTATGACAAGACTTCGCAAACGGGTGGCAACTAGGTTGAAAGACTCTCAGAACACTTTTGCGTTGCTGACAACTTTCAATGAAGTTGATAT

upper sequence: PP1S154_6V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: Vv10s0116g01480.t01 (Vitis vinifera), 3'ss of exon 11
---------------gtaagtccttgtgacatcataacacatgcaaccgtttggatgtatgcatgtcgaggttatctttttatggtggtctaaacctgcgctgcctgttgggagtgtattta-cagtttattgt--ggcttagaacttggatgttagggtaatcaacgtctctttttcgttttcagGTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCTCAGAACACTTTTGCATTGTTGACCACCTTCAACGAGATTGACAT
                ||| |  || | | |  ||| |   |    | || ||   |      |||  |  |||   | ||    |    |  |     |  ||  | |||| ||  | |   | |||| ||     | | ||| | ||| || ||   || |       | || ||   || ||||| || |||||  || || | ||  | || || ||||| |||||||||||||| |||||||||||| || ||||||| ||||| ||  |||| ||
gtaagcatcatgaacttaattatttattaaaatatacc-tgtaatcctgtctgttaggggttctgt-aaaattactatattccacttcatttgagggagggagctggatgggggttgagtggtctgtttcttactaagttcagatcctgg-tgctacaatatttggaacttattctta--ttgcagGTTCCTATGACAAGATTAAGGAAACGTGTTGCAACACGTTTGAAAGATTCTCAAAACACTTTTGCAATGCTGACCACATTCAATGAAGTTGATAT
















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|162156510|gb|FC332118.1|FC332118
EST:     CTATCAGTGGAACGGAAGTACACATGCCAACAAAAGGAGGAGAGCGACGG                         GTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCT
genomic: CTATCAGTGGAACGGAAGTACACATGCCAACAAAAGGAGGAGAGCGACGGgtaagtcctt ... tcgttttcagGTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtggcttagaacttggatgttagggtaatcaacgtctctttttcgttttcagGTACCAATGACCCGACTACGAAAGAGAGTGGCCACACGGTTGAAAGATTCTCAGAACACTTTTGCATTGTTGACCACCTTCAACGAGATTGACAT
                                   cgtctctttttcgttt  CT-rich tract
                            taatcaa  TA-rich tract