Sequence
atgc intronic sequence ATGC exonic sequencegtaagggcatacatgtctccccccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os04g52640.1 (Oryza sativa), 3'ss of exon 22
----gtaagggcatacat---gtctccccccata---tgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
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catacaaaccccttacataatgtcaaattacataagcagtttacatattatttttttttaatacatg---tgaaggtaatgatgtttt--tttggctctttccagTGGTTATCTTGCACCTGAGTACGCCATGAGAGGACATATGACTGAGAAAGTTGATGTGTTTGCATTTGGCGTGGTCTTATTGGAGACTTTAGCTGGCCGG
upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 3'ss of exon 22
gtaagggcatacatgtctccccccatatgtttaataatta-gtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
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----------gtaagta-cattccatctgttccacctttatgtttacaatcatatttatgttaatggtatttttgggtatcctttgtcc-----agCGGTTATCTTGCACCTGAGTATGCCATGAGAGGTCATATGACTGAGAAAGTTGATGTCTTTGCATTTGGCGTGGTCTTATTGGAGACTTTAGCTGGACGG
upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os04g52630.1 (Oryza sativa), 3'ss of exon 20
gtaagggcatac-atgtctccc-cccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
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gtaagttcattccatctttctcacctttgtctttacaaactacggagtactaa------agctaatgagatttttggctctcctttgtcc-----agTGGTTATCTTGCACCTGAGTATGCCATGAGAGGCCGTATGACTGAGAAAGTTGATGTCTTCGCATTTGGCGTGGTCTTATTGGAGATTTTAGCTGGCCGA
upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 3'ss of exon 18
gtaagggcatacatgtctccccccatatgt-ttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
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gtaagtacattccttctttcccacctttatgtttacaatt--tttc-----atacttatgttggcggtggctt-ttttggctctcctttgtcca-gCGGTTATCTTGCACCTGAGTACGCCATGAGAGGCCATATGACCGAGAAAGTTGACGTCTTTGCATTTGGCGTG---------------------------
upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 20
lower sequence: LOC_Os04g52606.2 (Oryza sativa), 3'ss of exon 19
gtaagggcatac-atgtctc-cccccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
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gtaagttcattccatctttcgcaccttcatgtttacaaattattttc-----gtacctgtgctaacggga----tttatggcttttcttttatctagTGGTTATCTTGCACCTGAGTATGCTATGAGAGGTCGTTTGACCGAGAAAGTTGATGTCTTTGCATTTGGCGTGGTCTTATTGGAGACTTTAGCTGGCCGAMapped 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|56691603|gb|CX129506.1|CX129506EST: CTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATT TGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGT
genomic: CTTTATGACGATAAAAAGACACATGTTAGCACAAAAGTTGCTGGTACATTgtaagggcat ... tttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
ttccttttcactttga CT-rich tract
tttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagggcatacatgtctccccccatatgtttaataattagtttccactaatgtctgagctaatggaagttccttttcactttgatttcttgaagTGGCTATCTTTCACCTGAGTACGCCATGAGAGGTCACATGACTGAGAAAGTTGATATTTTTGCTTTTGGTGTGGTCATGTTGGAGATTATTGCTGGAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG