Sequence
atgc intronic sequence ATGC exonic sequence...gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctaggaattttattttccatgatcactaactgttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g01880.1 (Oryza sativa), 3'ss of exon 4
gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctaggaattt-tattttccatgatcactaactg-ttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
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-taggcttgactaggaatattaatgattggtgctta-aatattttgtgcttttgcagctattcatagatttttttgttactgactgatttcttaacttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCGAAGCCTTTTGATCCTAAAACATATGTGGAGGAGGATGTATTTGTTACAGATGAATCTG
upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g38970.1 (Oryza sativa), 3'ss of exon 4
gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctaggaattt-tattttccatgatcactaactg-ttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
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-taggctttactaggaatgttatgat-cgatgcttaaatgtttttgtgcttttgcagctattcatatggttatttgttactgactaatttcttaacttgtagATGAATGTGATCAAGGTATCAAATATTATGGGGATTGACCCAAAGCCTTTTGATCCTAAAACATATGTGGAGGAGGATGTATTTGTTACAGATGAATCTG
upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G21900.2 (Glycine max), 3'ss of exon 4
--gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctag--gaattttattttccatgatcactaactgttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
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ccctttgtactgatgtgcattctggtaagatatgttgaa---tttcaatattcaactactcgtattttaaatttt-taatctctctctctctctctcattgcagATGAACATGATTAAAGTTTCCAATATTATGGGTGTTGATCCAAAACCATTTGATCCTAAAACATATGTGGAAGAGGATACTTTTGTAACCGATGAATCTG
upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA04G32540.1 (Glycine max), 3'ss of exon 4
----gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctaggaatt--ttattttccatgatcactaactgttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
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aaatgttgccttttgtaatg----atgtgcattctggtaagatatgttgaatttcaatattcaactactcatatttta-aatttttaatctctctct-catggcagATGAACATGATTAAAGTTTCCAATATTATGGGTGTTGATCCAAAACCCTTTGATCCTAAAACATATGTGGAAGAGGATACTTTTGTAACTGATGAATCTGMapped 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|20507335|gb|BQ279584.1|BQ279584EST: CACTAGACTTGGTGGTTCCATTTAAGCAACCACCAGCTCGACCTGACAAA ATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTT
genomic: CACTAGACTTGGTGGTTCCATTTAAGCAACCACCAGCTCGACCTGACAAAgtgagttatt ... tattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTT
EST:
gi|56691657|gb|CX129560.1|CX129560EST: CACTAGACTTGGTGGTTCCATTTAAGCAACCACCAGCTCGACCTGACAAA ATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTT
genomic: CACTAGACTTGGTGGTTCCATTTAAGCAACCACCAGCTCGACCTGACAAAgtgagttatt ... tattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcttggctaggaattttattttccatgatcactaactgttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
cactaac putative branch site (score: 1)
ctgttttctatttt CT-rich tract
taggaattttatttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaattttggtgatatagcaaacacgttgtgtttagaacttttcatgcttggctaggaattttattttccatgatcactaactgttttctattttgtagATGAATGTGATCAAGGTATCAAACATTATGGGGATTGACCCTAAACCCTTTGATCCAAAAACATATGTGGAAGAAGATGTTTTTGTTACAGATGAATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG