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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgtcaggcagcttaaaggtgccatctcctttttcccctggttgttgttttgtgcttagttgttttttggtcctgttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG

Basic information

species Oryza sativa
transcript LOC_Os04g46620.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G039263_T02 (Zea mays), 3'ss of exon 1
gtgatgtcaggcagcttaaaggtgccatctcctttttcccctggttgttgttttgtg-cttagttgttttttggtcctgttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG
|||||  |  |||||   ||  |   |         |    || ||| |  |||| |  ||| || | || || |      |||  |||||||||||||||||||||||||| |||||  | ||||| ||||||||||| || || ||||| || ||||| ||||| || || |||
gtgattcctagcagc---aaaatatgaagggaaaaatgttttgattgcttctttgcggtttatttatattctgctatca--atttctagGTTCTTGTTGAGTTGGCTGAGCTCCAAGATCGTGAGGTAGGAGATGGAACTACTTCCGTTGTCATCATAGCGGCAGAGTTACTCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G110626_T01 (Zea mays), 3'ss of exon 3
gtgatgtcaggcagcttaaaggtgccatctcctttttcccctggttgttgttttgtgcttagttgttttt---tggtcctgtta-ttgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG
||||| || ||||||  |||      |    | || |    || |||||  |||||| |||  | | |||   |  | || | | ||  ||||||||||||||||||||||| || |||||| | ||||| ||||||||||| || || ||||| || ||||| |||||  |||| |||
gtgatttctggcagc--aaaatctgaaaaaacattctgttttgattgtttctttgtgtttatatctatttatatatttctatcaatttctagGTTCTTGTTGAGTTGGCTGAACTCCAAGACCGTGAGGTAGGAGATGGAACAACTTCCGTTGTCATCATAGCGGCAGAGCTGCTCAAG

upper sequence: LOC_Os04g46620.1 (Oryza sativa), 3'ss of exon 3
lower sequence: AT3G20050.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------gtgat-gtcaggcagcttaaaggtgccatctcctttttcccctggttgttgttttgtgcttagtt-gttttttggtc---ctgttattgtt-----agGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG
               ||||| || |  |   ||     |  ||||   |     | |||||| |   ||  |  ||| |  ||| | |  ||   ||  | |||||     |||||||||| ||||| ||||| |||||||| ||||| || || ||||| || ||||||||||| ||  |||| || || ||| | |||
gtaatttatgcaaatgtgattgttatacgtattttct-tatcatcatttcaaaacactggttatgaattattagttactcagttctctaatctgtctacttttgttgtgacagGTTCTTGTCGAGTTAGCTGAACTTCAAGATAGAGAAGTCGGTGATGGGACTACATCTGTTGTTATTGTAGCTGCTGAGTTGTTGAAG

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|88726192|gb|CI749847.1|CI749847
EST:     TGGAGCAACCATTTCGAGGATGTNGGAAGTCGAGCATCCACCAGCCCAAG                         GTTCTTGTCGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAAC
genomic: TGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCC-AAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAAC
EST: gi|88729781|gb|CI753291.1|CI753291
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCACCCAAG                         GTTCTTGTNGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88729236|gb|CI752746.1|CI752746
EST:     TGGAGCAACCATTTTGAGGATGTCGGAAGTCGAGCATCCAGCCA-CCAAG                         GTTCTTGTCGAGTTGGCTGACCTTCAAGACAGAGAGGTGGGAGATGGAAC
genomic: TGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGC-AGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAAC
EST: gi|88728801|gb|CI752311.1|CI752311
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88389824|gb|CI626593.1|CI626593
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCACCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88718267|gb|CI741356.1|CI741356
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88576618|gb|CI670763.1|CI670763
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|86826131|gb|CI311004.1|CI311004
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88717868|gb|CI739380.1|CI739380
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTCGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88828143|gb|CI778708.1|CI778708
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGA
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGA
EST: gi|88358293|gb|CI606802.1|CI606802
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGAAAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88334889|gb|CI648664.1|CI648664
EST:     ATGGACCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAACACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88395151|gb|CI609467.1|CI609467
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAACACAGAGAGGTGGGACATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88372614|gb|CI610937.1|CI610937
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|13807435|gb|AU181953.1|AU181953
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88738876|gb|CI762384.1|CI762384
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGG
EST: gi|88727969|gb|CI751479.1|CI751479
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGACCATCCACCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTNAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88695933|gb|CI739508.1|CI739508
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88424401|gb|CI607987.1|CI607987
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88301610|gb|CI597303.1|CI597303
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88350316|gb|CI623254.1|CI623254
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCGGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88314778|gb|CI608237.1|CI608237
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88396969|gb|CI578118.1|CI578118
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88425784|gb|CI571684.1|CI571684
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88416925|gb|CI573640.1|CI573640
EST:     ATGGAGCAACCATTTTGAGGATGTTGGGAGTCCAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88693330|gb|CI736905.1|CI736905
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88426602|gb|CI579431.1|CI579431
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88315088|gb|CI610147.1|CI610147
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88694725|gb|CI738763.1|CI738763
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGG
EST: gi|58682634|gb|CK071321.1|CK071321
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCAAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGTGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88727997|gb|CI751507.1|CI751507
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCACCCAAG                         GTTCTTGTCGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88354225|gb|CI637791.1|CI637791
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88723173|gb|CI746683.1|CI746683
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88355132|gb|CI651835.1|CI651835
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|29682947|gb|CB679222.1|CB679222
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88407733|gb|CI607867.1|CI607867
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|58653426|gb|CK042106.1|CK042106
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCAAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGTGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88336708|gb|CI643883.1|CI643883
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
EST: gi|88692280|gb|CI735855.1|CI735855
EST:     ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAG                         GTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG
genomic: ATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACG

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: 64 (upstream exon), 72 (downstream exon)
Score: 30

ATGCTTGTGGATGATATTGGTGATGTTACCATAACAAATGATGGAGCAACCATTTTGAGGATGTTGGAAGTCGAGCATCCAGCAGCCAAGgtgatgtcag ... ttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcccctggttgttgttttgtgcttagttgttttttggtcctgttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG
                                        tcctgtt  CT-rich tract
                             ttgtttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatgtcaggcagcttaaaggtgccatctcctttttcccctggttgttgttttgtgcttagttgttttttggtcctgttattgttagGTTCTTGTTGAGTTGGCTGAGCTTCAAGACAGAGAGGTGGGAGATGGAACGACATCTGTTGTGATAATAGCCGCAGAATTGCTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA