Sequence
atgc intronic sequence ATGC exonic sequencegtatgtattggcctgcaattcagtttacttgacaggactagcactgcttctaacatttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os01g56630.2 (Oryza sativa), 3'ss of exon 13
gtatgtattggcctgcaattcagtttact----------tgacaggactagcactgcttctaacatttttgt--acagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
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gtatgtgctgactagcaattatatttactctgtacctcatagggagaatactactgcttctaatatgtgtatcaacagGTCGTGTATGCTATCTTGCATCGACAAGAGGTATTTCAGCCATTCAAAAACCATCCCCGCTTCAATGAATTGCTTGAGAATATTTACACA
upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 12
--------------------------------------------------gtatgtattggcctgcaattcagtttac-----ttgacaggactagcactg-cttctaacatttttgta-cagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
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gtaaacgattttgattgattgagaagatttatcatgtctatttttatctagtttgcagtaata-gaaatttacattataaccttttgcatctatcttactgatttcttgtgtgactggggcagGTAGTGTATGCAATAATGCACAGGCAGGAAGTCTTTCAGCCATTCAAGAATCATCCACGTTTCAATGAACTGATTGATAACATTTATACT
upper sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 13
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 13
--------------------------------------------------gtatgtattg---gcctgcaattcagttta----cttgacaggactagcactgcttctaacatt--tttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
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gtatcatcatttgtttgtgtggcaactaatacattatagacttgtatctgttatgtctcacaaatatacaaatcttattagcaccttttcatgctttataaaattactcactgtattttgggcagGTTGTATATGCAATAATGCACAGACAGGAGGTCTTTCAGCCTTTCAAGAATCATCCACGATTCAATGAGCTGCTTGAAAATATCTACACTMapped 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|26558732|gb|CA830967.1|CA830967EST: TCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST:
gi|87155515|gb|DY400304.1|DY400304EST: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST:
gi|78111274|gb|DV529671.1|DV529671EST: AATCCTTACATATGCATTGCCCAGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: AATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST:
gi|32793737|gb|CD945973.1|CD945973EST: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTA
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTA
EST:
gi|22472877|gb|BU037357.1|BU037357EST: AGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: AGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
EST:
gi|93282383|gb|EB674647.1|EB674647EST: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAG GTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
genomic: TGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAAT
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),
48 (downstream exon)
Score:
138TCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
84TCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
92TCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
140TCTACAGAGCTTCACATATATACAGATTTCTTGAGAATTGTTCTGGAAATAATCAATGCAATCCTTACATATGCATTGCCCAGAAATCCCGAGgtatgtattg ... ttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctgcaattcagtttacttgacaggactagcactgcttctaacatttttgtacagGTTGTATATGCTGTATTGCATCGACAAGAGGTTTTTGAGCCATTTAAAAATCATCCACGTTTTAATGAACTGCTTGAGAACATATACACT
ttctaac putative branch site (score: 140)
cattttt CT-rich tract
taacattttt TA-rich tract