Sequence
atgc intronic sequence ATGC exonic sequencegttaaccttttttgtttggtcaatatgagcatgatttctgtgtaacaaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 19
---------------gttaaccttttttgtttggtcaatatgagcatgatttctgtgtaac--aaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
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gttaacctttcacctctttttgtttttttttgggtcagttagcatagtttttctgcataggtaaaatacaaagggatttatacta--------tctggtgcagACATCAGACATATTGTATTATGAGGTGTTGGATATTCCACTGCCAGAATTGCAGGGCCTGAAAACCCTGAAAGTTGCATTCCACCATGCTACAAAGGATG
upper sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G23680.1 (Glycine max), 3'ss of exon 19
----------------------------------------gtta-accttttttgtttggt-caatatgagcatgat-----------ttctgtgtaacaaatgtgttggacttcc----tactaaagcgccatctggta----------cagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
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gtctgttgtttcacagagcaaaatttttgcaatcgattttgttacattctatttgcataatgttgcatgggcttgaagttgttttttatttttttttttaatttttgtaagcttccaatatgctaaactgttgtcttttggttttgcttctagACTTCTGATATTCTATACTATGAAGTATTGGATATCCCTCTGCCAGAATTGCAATGCCTAAAAACTCTTAAAATTACTTTCCATCATGCTACCAAGGATG
upper sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 23
gttaaccttttttgtttggtcaatat---gagcatgatttctgtgtaacaaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
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gtaattattgacttattgtccaatctttcaatcttgtttcttatttaaaaa-----caaagcatcctattcc--tttcatgcatgtcagACTTCGGATATATTGTACTATGAAGTACTTGACATCCCTCTGCCAGAACTACAAGGATTGAAAACTCTGAAAGTTGCATTTCACCATGCTACCAAGGATG
upper sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G06600.3 (Arabidopsis thaliana), 3'ss of exon 23
---gttaacctt---ttttgtttggtcaatatgagcatgatttctgtgtaacaaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
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gtaattgacgtgaagttcagcatactttacttatttgtc-ttgctatataaatataatacatgtctgcttattggttttttttttttttcagACGTCTGACATTTTGTATTATGAAGTTCTGGACATCCCTCTTCCAGAATTACAAGGTCTTAAAACCTTAAAAGTTGCTTTCCATCATGCCACGAAGGAAG
upper sequence: GRMZM2G418232_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT3G11910.1 (Arabidopsis thaliana), 3'ss of exon 23
gttaaccttttttgtttggtc-aatatgagcatgatttctgtgtaacaaat---gtgttggacttcctactaaagcgccatctggta------cagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
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gtgattgacattggtttgattgaacttacattttcttttttttttccgattctaatgcagaattgttaactatgaatgtttcttatatttttgcagACGTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGMapped 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|76936264|gb|DV174663.1|DV174663EST: AATATCGAGGAGTGGTGCATCTGTCGGACATGCTCATCCACTACAATCAG ACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTG
genomic: AATATCGAGGAGTGGTGCATCTGTCGGACATGCTCATCCACTACAATCAGgttaaccttt ... tctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTG
EST:
gi|78113609|gb|DV532000.1|DV532000EST: AATATCGAGGAGTGGTGCATCTGTCGGACATGCTCATCCACTACAATCAG ACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTG
genomic: AATATCGAGGAGTGGTGCATCTGTCGGACATGCTCATCCACTACAATCAGgttaaccttt ... tctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatttctgtgtaacaaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
tactaaa putative branch site (score: 1)
taacaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaaccttttttgtttggtcaatatgagcatgatttctgtgtaacaaatgtgttggacttcctactaaagcgccatctggtacagACGTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG