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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttcttttccacattaccatgtctttattcgtgttatcattgcaattctcatgctaaaagcataatcggctggtttattcgttttcacaaacatg...

Basic information

species Physcomitrella patens
transcript PP1S168_70V6.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S168_70V6.1 (Physcomitrella patens), 5'ss of exon 17
lower sequence: GRMZM2G023289_T03 (Zea mays), 5'ss of exon 16
GGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgt-------ttcttttccacattaccatgtctttattcgtgttatcattgcaat---tctcatgctaaaagcataatcggctggtttattcgttttcacaaacatg
 ||    | ||| |||||||||||||||||||| ||||||||    || |||||    || ||||| ||||| || || |||   |||||||| || |||||| ||       |  | || || ||  ||     |||||   |   | ||   |||    |||  ||  |||| | |  || || |      ||   |  ||||     
AGTAGTTGCAGCTGACGAGTTTGAGTACAAGGATCCAGTTGATGGCTCTGTGTCCAAGCACCAGGGCATCCGATACCTCTTCGGAGATGGTTCACGACTGgtatgtagacctgtattgtttcagatatcctctattttatgtcttgaaccaaaacaaagggtctggtgtgaaaaccttgttccgcag------tcagctgtacaat----

upper sequence: PP1S168_70V6.1 (Physcomitrella patens), 5'ss of exon 17
lower sequence: EFJ09195 (Selaginella moellendorffii), 5'ss of exon 15
GGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttcttttccacattaccatgtctttattcgtgttatcattgcaattctcatgctaaaagcataatcggctggtttattcgttttcacaaacatg
  |  ||||||||||||||||||||||||| || ||||||||    |||||  |  | || || || ||||| | ||||||| ||||||| ||||| || ||  ||        | |  | |||       |||  |   | | | |      || |   |                                       
TATCAAAGAAGCAGACGAGTTTGAGTACAAAGATCCAGTTGATGGTTCCGTCGCAAGCCACCAAGGAATCCGCTTTCTTTTCCAGGATGGCTCTCGACTTgtgagtaaaggaaactctcttccacagag--attgttaaaaacgtcgtccgcttcgtttcag--------------------------------------

upper sequence: PP1S168_70V6.1 (Physcomitrella patens), 5'ss of exon 17
lower sequence: EFJ05270 (Selaginella moellendorffii), 5'ss of exon 15
GGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttcttttccacattaccatgtctttattcgtgttatcattgcaattctcatgctaaaagcataatcggctggtttattcgttttcacaaacatg
  |  ||||||||||||||||||||||||| || ||||||||    |||||  |  | || || || ||||| | ||||||| ||||||| ||||| || ||  ||         ||  |     |     |||  |   | | | |      || |   |                                       
TATCAAAGAAGCAGACGAGTTTGAGTACAAAGATCCAGTTGATGGTTCCGTCGCAAGCCACCAAGGAATCCGCTTTCTTTTCCAGGATGGCTCTCGACTTgtgagtaaaggaa--actctctttcgcagagattgtttaaaacgtcgtccgcttcgtttcag--------------------------------------

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|162267296|gb|FC442084.1|FC442084
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162193825|gb|FC371300.1|FC371300
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|208400781|gb|DC925061.1|DC925061
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162223683|gb|FC399456.1|FC399456
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162259443|gb|FC434954.1|FC434954
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|67699423|gb|BJ959656.1|BJ959656
EST:     TTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162193558|gb|FC370461.1|FC370461
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|18339397|gb|BJ171424.1|BJ171424
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTNGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162162824|gb|FC338086.1|FC338086
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162193826|gb|FC371301.1|FC371301
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTAAGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162164263|gb|FC342078.1|FC342078
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162259444|gb|FC434955.1|FC434955
EST:     GTCTTGTCATCAGGGTATCCGTTATCTTTTNCA-GGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: GTCTTGTCATCAGGGTATCCGTTATCTTTT-CAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162200465|gb|FC376126.1|FC376126
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37848361|gb|BJ606369.1|BJ606369
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162150597|gb|FC326453.1|FC326453
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162150598|gb|FC326454.1|FC326454
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37846517|gb|BJ604525.1|BJ604525
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37840790|gb|BJ598798.1|BJ598798
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162189353|gb|FC366511.1|FC366511
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTT
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTT
EST: gi|162192557|gb|FC370604.1|FC370604
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37845541|gb|BJ603549.1|BJ603549
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37852890|gb|BJ610898.1|BJ610898
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162169785|gb|FC345322.1|FC345322
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCANGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162236018|gb|FC412177.1|FC412177
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37851537|gb|BJ609545.1|BJ609545
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162192556|gb|FC370603.1|FC370603
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162236017|gb|FC412176.1|FC412176
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37838353|gb|BJ596361.1|BJ596361
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37838320|gb|BJ596328.1|BJ596328
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|37825076|gb|BJ583142.1|BJ583142
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|208368987|gb|DC955072.1|DC955072
EST:     TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162181556|gb|FC358170.1|FC358170
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
EST: gi|162200466|gb|FC376127.1|FC376127
EST:     TGTCTAGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTG                         GTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC
genomic: TGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttct ... gtatctgtagGTATTCCGTCTCTCAGGAACAGGTTCAGTCGGCGCTACAATTCGTCTTTAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTTCAAGAAGCAGACGAGTTTGAGTACAAGGACCCAGTTGACCAGTCCGTGTCTTGTCATCAGGGTATCCGTTATCTTTTCAAGGATGGTTCTCGGCTGgtacgtttcttttccacattaccatgtctttattcgtgttatcattgcaattctcatgctaaaagcataatcggctggtttattcgttttcacaaacatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG