Sequence
atgc intronic sequence ATGC exonic sequencegtaagccaattactttttcatcgaaataagccggtcgaagttatcgaaatggcggtgtcttgttgaagttattcagatggcaatgtaacatccctcatctagttttgctttatccatgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G099452_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os06g48650.3 (Oryza sativa), 3'ss of exon 9
gtaagccaattactttttcatcgaaataagccggtcgaagttatcgaaatggcggtgtcttgttgaagttattcagatggcaatgtaacatccctcatctagttttgctttatccatgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
| | |||| || | | || | || || | | |||||||||| ||| | | || | |||| |||| || | | |||| || ||| |||| |||||||| ||| |||| |||||||||||||| | || || ||||||||||||||| | || || |||||| ||||| ||||||||
----------------gtaagttaaatttttcgtatgcaattttttaataaattcaaactgctccatgttattcagacaataatctgaagaccat--tctaagtttgaatttttttttgttggtagCTCATCAAGATTACATCACATTTTTGTGTTCGATCCCCGACGTGGAACACAGTGAAGTATCAAACATAACTGGTTCAACTTGCAGCTCCAGCTCCAAGGTMapped 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|50336202|gb|CO531328.1|CO531328EST: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
EST:
gi|149089750|gb|EE179023.2|EE179023EST: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
EST:
gi|149033083|gb|EE154985.2|EE154985EST: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
EST:
gi|22491341|gb|BU051264.1|BU051264EST: TGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: TGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
EST:
gi|149033082|gb|EE154984.2|EE154984EST: CCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: CCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
EST:
gi|67029958|gb|CO458707.1|CO458707EST: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAA GCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
genomic: CGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGA
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),
45 (downstream exon)
Score:
87TCAGAAATGATGACACTTTCACGGGCCACACCGTTCGATTGTGGCAGTGGCGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
Block sizes:
49 (upstream exon),
34 (downstream exon)
Score:
14TCAGAAATGATGACACTTTCACGGGCCACACCGTTCGATTGTGGCAGTGGCGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
Block sizes:
49 (upstream exon),
44 (downstream exon)
Score:
25TCAGAAATGATGACACTTTCACGGGCCACACCGTTCGATTGTGGCAGTGGCGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
Block sizes:
47 (upstream exon),
45 (downstream exon)
Score:
10TCAGAAATGATGACACTTTCACGGGCCACACCGTTCGATTGTGGCAGTGGCGCTGTTAACCCAAAAGGCGCCCTCGATCCTGGCCTTGTTCTAGACGCAAgtaagccaat ... tgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagatggcaatgtaacatccctcatctagttttgctttatccatgcttggcagGCCATGAAGACTACATCACGTTTCTGTGCTCGATCCCCGACGTCAACCAGAGCGAAGTATCAAACATAGCCGGCTCGGCTTGCAACTCCAACTCCAAGGG
atgtaac putative branch site (score: 10)
aatgtaa TA-rich tract