Sequence
atgc intronic sequence ATGC exonic sequence...aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcatttatgctataatcttctgatgtttccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 2
aaatgttactgatgttgataagctgtgatgcttgctgga---ttcactgtagcatttatgctat----aatcttctgatgtttccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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-----tcaatgtcttacatctgct-tcatttttggtaaaacttccaatgtttcattcatgttgatggagaatatcttatgtgttatcttattatt-ttactatacagGTCCCTTTCTGTCCTATGGTAGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTAATGGAGAATTTCCGTAGAGCTATAGGTTTGCGTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g62040.3 (Oryza sativa), 3'ss of exon 2
--aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcatttatgctataatcttctgatgtttccttcccctgtcactgc--aatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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ttatgagttttttgt-ttgatgccct---acatctacttcagttttggtaaaagttccaatgtatctaatggttgatatgttgtcttgttatttcataacacagGTCCCCTTCTGTCCTATGGTGGGATCAGAAGTGTATTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTCGAGCTATAGGCTTGCGTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 2
-aaatgttactgatgttgataagct-gtgatgcttgctggat-tcactgtagcatttatgctataatcttctgatgtttccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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gtttccctctcaagactctcattctcgtggtgttttttttttctctgtgttttgattgtgacccttcttgctgctgataataatgtttat-gccactctgcagGTTCCTTTCTGCCCAATGGTTGGTTCTGAAGTTTACTCCTCAGAAGTAAAGAAGACCGAGGTTCTCATGGAAAATTTTAGACGGGCCATTGGTCTGCGTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G21830.1 (Glycine max), 3'ss of exon 2
aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcatttatgctataatcttctgatgtttccttcccctgtcactgcaat--gcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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-------------gtttctttctcaagactctc-----attctttgtgttgtgattgttaccccttcttgctgcttataattaagtttattccactctgcagGTACCGTTCTGCCCTATGGTTGGCTCCGAAGTTTACTCCTCGGAAGTAAAGAAGACTGAGGTTCTCATGGAAAATTTTCGACGGGCCATTGGTCTGCGTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 2
--------aaatgttac----tgatgttgataagctgtgatgcttgc---tggattcactgtagca---tttatgctataatcttctgatgtttccttccc--ctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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gtaattttggatgtctcattttgtatcttctttgttacattgtttccacatggcttcattgtatgaagcttttttcttttacttttagcttattttatctggattgtttctttcttgcagGTTCCATTCTGTCCAATGGTTGGATCTGAGGTTTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------------------------------------------aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcattt---atgctataatcttctgatgttt-----ccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
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gtacaacttaaatgtactcttaccattttttgttcagtagtgtcttgaattctctttatcagagctgtagatttagattctggggttctctccagttgattttcagtctagctctgggatgttgaatgccttactcttcaggggtgtgagatctgctttttacttctgatttacagGTTCCTTTCTGCCCAATGGTGGGATCAGAGGTATACTCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTAMapped 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|8102879|gb|AW927557.1|AW927557EST: CGGGCAAAACGGCGCTAGCGCTCGGCATAGCGCAGGAGCTCGGCAGCAAG GTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
genomic: CGGGCAAAACGGCGCTAGCGCTCGGCATAGCGCAGGAGCTCGGCAGCAAGgtccgtgcgc ... tgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
EST:
gi|8102878|gb|AW927556.1|AW927556EST: CGGGCAAAACGGCGCTAGCGCTCGGCATATTGCAGGAGCTCGGCAGCAAG GTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
genomic: CGGGCAAAACGGCGCTAGCGCTCGGCATAGCGCAGGAGCTCGGCAGCAAGgtccgtgcgc ... tgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
EST:
gi|78103432|gb|DV521860.1|DV521860EST: CGCAGGAGCTCGGCAGCAAG GTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
genomic: CGCAGGAGCTCGGCAGCAAGgtccgtgcgc ... tgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagcatttatgctataatcttctgatgtttccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
ttctgat putative branch site (score: 3)
tttccttcccctgtca CT-rich tract
atttatgctataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgttactgatgttgataagctgtgatgcttgctggattcactgtagcatttatgctataatcttctgatgtttccttcccctgtcactgcaatgcagGTCCCATTCTGTCCTATGGTAGGATCAGAAGTGTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- -tgttact
- - - - - - tgttgat
- - - - - - - - - - agctgtg
- - - - - - - - - - - - - - tgcttgc
- - - - - - - - - - - - - - - - - - - - - -ctgtagc
- - - - - - - - - - - - - - - - - - - - - - - - - - ttatgct