Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatacctatgtcactgattccatcatattatttctagtatcccatagcactgaaccttcttgtaagttaaataatgcatatgtcaactatgcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC

Basic information

species Oryza sativa
transcript LOC_Os06g49110.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49110.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv18s0001g02550.t01 (Vitis vinifera), 3'ss of exon 8
gtacatacctatgtcactgattccatcatattatttctagtatcccatagcactgaaccttcttgtaagttaaataatgcatatgtcaactatgct-tatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC
     |    || |   || |   |   | || |  ||  | |||   |    |  |  |  |  |   || || | ||   || || |||    |  |  |||||| || ||| | |||||||| |||||||||||||| ||||| ||||||||| | ||||| ||||| || ||
-gctgtttggatattgttggtaa-actttgttctcactcatttccggcaatcatatag-tcatcatttttttaaca-tgttaatctctacttcattgcaaacagGTATGCAAGTGCATTTTATGGTCCATTCCGAGAAGCATTGGACTCAAATCCACGCTTTGGAGACAAAAAAAC
















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|29685228|gb|CB681503.1|CB681503
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29645009|gb|CB650016.1|CB650016
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29619412|gb|CB624424.1|CB624424
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624059|gb|CB629070.1|CB629070
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624058|gb|CB629069.1|CB629069
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29660427|gb|CB656702.1|CB656702
EST:     TGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGNCAA-                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGAT
genomic: TGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTG-CAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGAT
EST: gi|29645159|gb|CB650166.1|CB650166
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29661435|gb|CB657710.1|CB657710
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29617547|gb|CB622559.1|CB622559
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29629261|gb|CB634272.1|CB634272
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624061|gb|CB629072.1|CB629072
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29615587|gb|CB620599.1|CB620599
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29641825|gb|CB646832.1|CB646832
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624057|gb|CB629068.1|CB629068
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29621569|gb|CB626580.1|CB626580
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29619109|gb|CB624121.1|CB624121
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29619316|gb|CB624328.1|CB624328
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|27577435|gb|CB000130.1|CB000130
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29660274|gb|CB656549.1|CB656549
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|38471437|gb|CF955568.1|CF955568
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|33680655|gb|CF308894.1|CF308894
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29621570|gb|CB626581.1|CB626581
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29688150|gb|CB684425.1|CB684425
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|25806864|gb|CA762825.1|CA762825
EST:     GGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAAATC
genomic: GGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTC-AAATC
EST: gi|58601365|gb|CK011893.1|CK011893
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29666982|gb|CB663257.1|CB663257
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|27554454|gb|CA998354.1|CA998354
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29688149|gb|CB684424.1|CB684424
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624056|gb|CB629067.1|CB629067
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|58586199|gb|CF984507.1|CF984507
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|9788971|gb|BE530981.1|BE530981
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCT
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29616371|gb|CB621383.1|CB621383
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29660428|gb|CB656703.1|CB656703
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|86493942|gb|CI136575.1|CI136575
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|396941280|gb|HO188489.1|HO188489
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29624060|gb|CB629071.1|CB629071
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29655803|gb|CB652078.1|CB652078
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29688151|gb|CB684426.1|CB684426
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29679003|gb|CB675278.1|CB675278
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29629260|gb|CB634271.1|CB634271
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29672091|gb|CB668366.1|CB668366
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
EST: gi|29613358|gb|CB618371.1|CB618371
EST:     TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAA                         GTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC
genomic: TTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCC

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: 69 (upstream exon), 69 (downstream exon)
Score: 55

TTAGCCCTAGTGACATGATGGATGGCCGTGTTGGAGCAATACGTGCTGCTTTGGATGCTGAGGGTTTCCATGATGTCTCCATTATGTCCTATACTGCAAAgtacatacct ... gcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcactgaaccttcttgtaagttaaataatgcatatgtcaactatgcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC
              ttgtaagttaaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatacctatgtcactgattccatcatattatttctagtatcccatagcactgaaccttcttgtaagttaaataatgcatatgtcaactatgcttatgcagGTACGCCAGTTCGTTTTATGGCCCATTCCGAGAAGCTTTGGATTCAAATCCAAGATTTGGGGACAAGAAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG