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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgcaagcttatgcttttattgaggatatgaacagaactttcttctcttctccatcctatacccatacttgaatgtcttcactcatcatctttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT

Basic information

species Zea mays
transcript GRMZM2G002614_T01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G861300_T01 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os01g46750.1 (Oryza sativa), 3'ss of exon 14
-cgcaagcttatgcttttattgaggatatgaacagaactttcttctcttctccatcctatacccatacttgaatgtcttcactcatcatctttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT
   |||   | | ||    |  |||  || | ||    |   |           |  | | || | |      ||| || | ||||  |  |  |||||||| |||||||| ||||||||||||||||||||||| ||||||||||| |||| ||||||||| |||||||| || ||||||||||| || |||||  | ||
aaacaaaagtttcctaaattgtaggtcattatcattgatccatgtaacctgaattttttttccaacagaactttgttttgaatcatt-tggtctcttttagGTCTCACGGAGACTTGTGCTGGATCTTTCGTCTCCCTACCAAATCAGATGTGCATGATAGGGACTGTTGGTCCTCCAGTGCCAAATATTGATGTCTGCCT
















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 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 176

GGAAATGTTAGAGTTATTTTATCTGGAGCTGCTCCACTTGCTACCCATGTTGAAGAATACTTGCGTGTGGTCACATGTGCACATGTCGTACAAGGATATGgtacatttct ... ttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 274

GGAAATGTTAGAGTTATTTTATCTGGAGCTGCTCCACTTGCTACCCATGTTGAAGAATACTTGCGTGTGGTCACATGTGCACATGTCGTACAAGGATATGgtacatttct ... ttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 212

GGAAATGTTAGAGTTATTTTATCTGGAGCTGCTCCACTTGCTACCCATGTTGAAGAATACTTGCGTGTGGTCACATGTGCACATGTCGTACAAGGATATGgtacatttct ... ttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 122

GGAAATGTTAGAGTTATTTTATCTGGAGCTGCTCCACTTGCTACCCATGTTGAAGAATACTTGCGTGTGGTCACATGTGCACATGTCGTACAAGGATATGgtacatttct ... ttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctccatcctatacccatacttgaatgtcttcactcatcatctttccttttagGCCTCACGGAAACTTGTGCTGGATCTTTCGTCTCGCTACCAAATCAAATGTCCATGATAGGAACTGTTGGCCCCCCAGTGCCAAACATCGATGTTCGTCT
                             tcttcactcatcatct  CT-rich tract
                                                 tttta  TA-rich tract