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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttcaagtgtttgcaattagcgtaatgcacattcctttcatcgaaggtttggctggcttcctttgagttttcggtcttcaacaaaatgcgtttcgacttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCTGCAGTGGCGAACATACCATACGGGGGAGCGAAGGGAGGCATTGGATGTA

Basic information

species Physcomitrella patens
transcript PP1S62_236V6.5
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S62_236V6.3 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G178415_T03 (Zea mays), 3'ss of exon 3
gtatcttcaagtgtttgcaattagcgtaatgcacattcctttcatcgaaggtttggctggcttcctttgagttttcggtcttcaacaaaatgcgtttcgacttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCTGCAGTGGCGAACATACCATACGGGGGAGCGAAGGGAGGCATTGGATGTA----------------------------------------------------
                                                       | |||       |  | |   | | ||  |   ||| |  || |||     ||||||||     |||| || ||||| |||||||| |||||||| |||||| | ||||| || ||||||||||| || ||||| || || || ||||||||||                                                    
-------------------------------------------------------gttggtgaaaaatctggtcctgatgtttga---aatcc--tttgacaacc-caggttgatcctgatgaagttaatgccttggcacaattgatgacttggaaaacagCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTAGCCCTGGAGACCTGAGCATCTCTGAGCTTGAGAGGCTTACCCGAGTTTTTAC

upper sequence: PP1S62_236V6.3 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G178415_T02 (Zea mays), 3'ss of exon 3
gtatcttcaagtgtttgcaattagcgtaatgcacattcctttcatcgaaggtttggctggcttcctttg---agttttcggtcttca-acaaaatgcgtttcgacttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCTGCAGTGGCGAACATACCATACGGGGGAGCGAAGGGAGGCATTGGATGTA
     | ||  |  ||  |||||   |        | |  |||||  |||  |        | | || |   |   |  |||| | |      |     || |||     ||||||||     |||| || ||||| |||||||| |||||||| |||||| | ||||| || ||||||||||| || ||||| || || || ||||||||||
----atccatttccttcaaattaattt--------tcctcttcatttaagactcattgaaatccgttggtgaaaaatctggtcctgatgtttgaaatcctttgacaacc-cagGTTGATCCTGATGAAGTTAATGCCTTGGCACAATTGATGACTTGGAAAACAGCAGTAGCTAACATACCATATGGAGGAGCCAAAGGTGGAATTGGATGTA

upper sequence: PP1S62_236V6.3 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA02G07940.1 (Glycine max), 3'ss of exon 3
gtatcttcaagtgtttgcaattagcgtaatgcacattcctttcatcgaaggtttggctggcttcctttgagttttcggtcttcaacaaaatgcgtttcgacttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCTGCAGTGGCGAACATACCATACGGGGGAGCGAAGGGAGGCATTGGATGTA
           | |||  | |  |  | |   | |   |  | ||  |    ||    || ||    | |||| |      ||||  | |||  ||| | |||  | |||||||     |||| |||||||||||||||||  | |||||||||||  | ||||| ||||| |||||||| || ||||| || ||||| || || ||| 
---------gttatttatattctgacttacaaaaaactcagtgatttatctgtttataggttt----taagttct-atcactcaatcatatgtcttt-ggcttgagtagGTTGAACCAGATGAAGTGAATGCTTTGGCACAACTAATGACATGGAAGACAGCAGTAGCGAATATACCATATGGTGGAGCCAAAGGAGGGATAGGGTGTG

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|162167228|gb|FC342793.1|FC342793
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|18346137|gb|BJ178180.1|BJ178180
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|100418062|gb|BY993317.1|BY993317
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162275836|gb|FC451397.1|FC451397
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|18368324|gb|BJ200409.1|BJ200409
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162176130|gb|FC351079.1|FC351079
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162253971|gb|FC430215.1|FC430215
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|67573617|gb|BJ946441.1|BJ946441
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162162143|gb|FC337717.1|FC337717
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|100407781|gb|BY955775.1|BY955775
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162194068|gb|FC370243.1|FC370243
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|18364201|gb|BJ196274.1|BJ196274
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|162244815|gb|FC425471.1|FC425471
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|18361352|gb|BJ193418.1|BJ193418
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
EST: gi|18367879|gb|BJ199962.1|BJ199962
EST:     ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAG                         GTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT
genomic: ATGACAACTCCCGTGGCCAAATGAAGGGCGGCATTCGATACCATCCTGAGgtatcttcaa ... acttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctggcttcctttgagttttcggtcttcaacaaaatgcgtttcgacttttgcagGTTGAGTTGAATGAGGTGAATGCTTTGGCACAGTTGATGACATGGAAATCTGCAGTGGCGAACATACCATACGGGGGAGCGAAGGGAGGCATTGGATGTA
                                              cttttgc  CT-rich tract
                             aacaaaat  TA-rich tract