Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctgtatagacaatctgttttttttagtttctgccatttctgcttatttatctgacaccatgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G030144_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 15
----------gtatgtctgtatagacaatctgtttttttta-gtttctgccatttctgcttatttatct-gacaccatgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
||| || ||||||| || ||| ||| || ||||| |||||| | ||||||| || ||||||||| || |||||||||| ||||||||||||||||||||||||||||||||| ||||||||||| |||
gtaaaagttatcatgatgataatatttgcatgtttttcatatgttgctg--atccaagcttacttatcttaataccatgcagCTGAGACTAAAGTTGCACCTGTTACACCCCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAAGCACATCTCTTTCTGMapped 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|91876800|gb|EB406757.1|EB406757EST: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAG AGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
genomic: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
EST:
gi|71433259|gb|DR814309.1|DR814309EST: TTAGCCTTCCTGGCATAG AGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
genomic: TTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
EST:
gi|67021834|gb|CO450583.1|CO450583EST: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAG AGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
genomic: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
EST:
gi|88751809|gb|DY535950.1|DY535950EST: TTCTGTACAAAATGGACCACCAACGGAAAACTTTACCCTTCCTGGCATAG AGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
genomic: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
EST:
gi|67037313|gb|CO464163.1|CO464163EST: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAG AGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
genomic: TTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTT
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:
49 (upstream exon),
48 (downstream exon)
Score:
66CCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
71CCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
66CCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
65CCGTCTACAAGCACTGACATTCTGATGGATCTTCTATCTATTGGTTCATCTTCTGTACAAAATGGACCACCAACGGCAAACTTTAGCCTTCCTGGCATAGgtatgtctgt ... catgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttttttttagtttctgccatttctgcttatttatctgacaccatgctgcagAGACTAAATCTGTCGCTGTTACACCTCAAGTTGTGGATCTTCTTGATGGTTTGTCCTCAGGCACATCTCTTCCTG
atctgac putative branch site (score: 65)
tttttttagtttct TA-rich tract