Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgactgtttgacgcctgaaaaattgtgtttcccatcattcttggatttcatgataattgatgttgtccagtcttaaatgtatccatctatttgcaaactcaagtacattcttagacaattaagtatgcatattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G055219_T01 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os01g54119.1 (Oryza sativa), 3'ss of exon 17
gtaagttgactgtttgacg-----cctgaaaaattgtgtttcc-----catcattcttggatttcatgataattgatgttgtcca----gtcttaaatgtatccatctatttgcaaactcaagtacattcttagacaattaagtatgcatattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
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gtacgttcaccatttctcttttgttctgaacatccagggaaacaggagcaaaccttctgttctcaatcacacctgatgattcacataatgtttaaaatg-gtccttatattttcaagtgctgttg---tcttagacaattaagtgtactatttgcagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAGMapped 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|78021984|gb|DV490371.1|DV490371EST: GGGAAGAAGATGCTGATATCAAGGCATTAGA GCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
genomic: GGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
EST:
gi|5847135|gb|AW000214.1|AW000214EST: GGGAAGAAGATGCTGATATCAAGGCATTAGA GCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
genomic: GGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
EST:
gi|60338931|gb|DN205904.1|DN205904EST: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGA GCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
genomic: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
EST:
gi|60343054|gb|DN210027.1|DN210027EST: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGA GCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
genomic: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
EST:
gi|5343246|gb|AI795551.1|AI795551EST: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGA GCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
genomic: CGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
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),
43 (downstream exon)
Score:
57ATTGAGGCAGAAAGGAGTAAAGCTACTCGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
Block sizes:
49 (upstream exon),
46 (downstream exon)
Score:
43ATTGAGGCAGAAAGGAGTAAAGCTACTCGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
Block sizes:
49 (upstream exon),
46 (downstream exon)
Score:
57ATTGAGGCAGAAAGGAGTAAAGCTACTCGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
90ATTGAGGCAGAAAGGAGTAAAGCTACTCGCAGATCAGCATCGTCGTGGGAAGAAGATGCTGATATCAAGGCATTAGAgtaagttgac ... catattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatctatttgcaaactcaagtacattcttagacaattaagtatgcatattgtagGCCTCTTCCTCTACATCATCGACACATGGCAACAGCAAATCAGCAG
aattaagtat TA-rich tract