Sequence
atgc intronic sequence ATGC exonic sequencegtacctctcctggctgtagttaatgcatttattgtgcaataaatcttggttatgattttttatcaacatgttttatgtgctattctggttgaatgtccatctgcagtattaaataccatgtctttttcttttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 11
-------------------------gtacctctcctggctgtagttaatgcatttattgtgcaataaatcttggttatga------------ttttttatcaacatgttttatgtgctattctggttgaatgtccatct----gcagtattaaataccatgtctt----------------tttcttttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
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gtgtctcttctaattcctcatcagttttgctgtcctttcactgcctcatgcatttgctctgtgctatgactggtttatgaactaaaacgatttgtattgcccaaattgggcacattctatcctgattttgtatacattcttgattaataccaaatatcatatgtcccatgtattgatcttgttcccttttctttcagGAGTTCACTTTTAAGTGTTTATGCGGACATGTCAGTAACTTGCAAGMapped 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|211500355|gb|FL431278.1|FL431278EST: GACAGAAAACTGAACAACACATATG-CCCCCTTCTTTTCAGCAG GAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
genomic: GACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
EST:
gi|211323425|gb|FL039625.1|FL039625EST: GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG GAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
genomic: GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
EST:
gi|13558607|gb|BG549963.1|BG549963EST: GTTTTGTCTTGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG GAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
genomic: G-TTTGAC-AGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
EST:
gi|71765382|gb|DR963319.1|DR963319EST: AAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG GAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
genomic: AAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
EST:
gi|31350094|gb|CD434451.1|CD434451EST: GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG GAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
genomic: GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
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:
47 (upstream exon),
46 (downstream exon)
Score:
80GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
205GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
154GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
82GTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAGgtacctctcc ... ttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggttgaatgtccatctgcagtattaaataccatgtctttttcttttcttttcagGAGTTCACTTTTAAGTGTCTATGCAGACATGTCAGTAACCTGCAAG
taccatgtctttttct CT-rich tract
tttttcttttctttt TA-rich tract