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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctcatatgatctcttcctatatatacttggaaccaattgccggtctatatatataatctgatccaggacaatatagctagctaggctagtttttgtatatgcacacttaatattgtatagatctttaaataatggctatatttttttgcttatatatgcctctgaaagtctgaatgtgatacctgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTACATGCCCCCATGGCTACCATGATGATGACGGGGACAATGAATTACGAAA

Basic information

species Oryza sativa
transcript LOC_Os08g41950.2
intron # 7
splice site 3'
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|88451306|gb|CI536699.1|CI536699
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88295422|gb|CI527785.1|CI527785
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88547470|gb|CI477765.1|CI477765
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88527618|gb|CI455792.1|CI455792
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|15850718|gb|BI798994.1|BI798994
EST:     CCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: CCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88382021|gb|CI530827.1|CI530827
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88304766|gb|CI520621.1|CI520621
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88381148|gb|CI525918.1|CI525918
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88285794|gb|CI512451.1|CI512451
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88459428|gb|CI519489.1|CI519489
EST:     GGTTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88455670|gb|CI524089.1|CI524089
EST:     -GGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|2799584|gb|AA752573.1|AA752573
EST:     BGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTBG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88549481|gb|CI479374.1|CI479374
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88561400|gb|CI492117.1|CI492117
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|163927411|gb|EG713875.1|EG713875
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88437338|gb|CI528697.1|CI528697
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88413642|gb|CI526204.1|CI526204
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88286764|gb|CI520074.1|CI520074
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88462959|gb|CI522070.1|CI522070
EST:     GGGTTCTTCCATCCACTTGATGCTGCTTGTGAACCCACCCTTCAGATTGGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCT
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATT-GGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCT
EST: gi|88528841|gb|CI457112.1|CI457112
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88463810|gb|CI527137.1|CI527137
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|87028912|gb|CI351215.1|CI351215
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88521575|gb|CI449278.1|CI449278
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88466841|gb|CI504835.1|CI504835
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88462025|gb|CI504523.1|CI504523
EST:     GGGTTTTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88560578|gb|CI491257.1|CI491257
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88545072|gb|CI474607.1|CI474607
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|15847472|gb|BI795748.1|BI795748
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88256015|gb|CI358403.1|CI358403
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATG-ACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88463886|gb|CI527213.1|CI527213
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88257218|gb|CI359606.1|CI359606
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88466076|gb|CI519949.1|CI519949
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGGCGATGAACAGTGCGTGCATGAACACCT
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGA-GGCGATGAACAGTGCGTGCATGAACACCT
EST: gi|88455969|gb|CI526785.1|CI526785
EST:     GGTTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88459827|gb|CI524286.1|CI524286
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88457377|gb|CI534375.1|CI534375
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88466004|gb|CI519877.1|CI519877
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|86834748|gb|CI340865.1|CI340865
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88468055|gb|CI517514.1|CI517514
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
EST: gi|88466377|gb|CI529786.1|CI529786
EST:     GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGG                         GTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA
genomic: GGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTA

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: 57 (upstream exon), 75 (downstream exon)
Score: 93

TTGGCTATGAACGTCAGCCTGAAGTGCAGCAGCCTCTTCACGGCGGCAATGGGTTCTTCCATCCACTTGATGCTGCTGGTGAACCCACCCTTCAGATTGGgtatgctcat ... tgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTACATGCCCCCATGGCTACCATGATGATGACGGGGACAATGAATTACGAAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttttttgcttatatatgcctctgaaagtctgaatgtgatacctgttttgcagGTACCCTGCAGAGCATCATGAGGCGATGAACAGTGCGTGCATGAACACCTACATGCCCCCATGGCTACCATGATGATGACGGGGACAATGAATTACGAAA
                                           cctgtttt  CT-rich tract
     ttttgcttatatat  TA-rich tract