Sequence
atgc intronic sequence ATGC exonic sequencegtagctaacgtcacttcttcaacaaacacaaactgatgaaaaattctgagatatgcattctgcattagatccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------------------------------gtagctaacgtcacttcttcaacaaacacaaactgatgaaaaattctgagat----atgcattctgcattagatccttcaacacacattttgtgt-tctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
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gtaatctattatatgcttgaagcactaagtagttgttggctatcactgtcactgaatgtctagagtaatgatgacctgtgaaataagattgcatggacattgcatagtggacttttggcacactctattttctatttttcttgacttgactcttgtgtgtctgttcagGTTAGTGCTACTGGAGATATGTGTGCTATATGCCAGGAAAAGATGCATACTCCCATTCTTTTGCGCTGTAAGCATATCTTTTGCGAGGATTGTGTCTCTG
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G45010.1 (Glycine max), 3'ss of exon 6
-gtagctaacgtcacttcttcaacaaacacaaactgatgaaaaattctgagatatgcattctgcattagatccttcaacacacattttgtgt-tctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
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agttgtatacttcacag--tctgttgttaagagcc-atatagccttct-atatgcatgtctgggagcagggagttgttcatgcctttaatttatctgatggcagGTCAATGCAGCTGGTGATCTTTGTGCTATTTGCCAGGAGAAGATGCATGCTCCCATCTTACTACGTTGTAAACATATTTTCTGTGAAGATTGCGTATCAG
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G14590.1 (Glycine max), 3'ss of exon 6
gtagctaacgtcacttcttcaacaaacacaaactgatgaaa--aattctgagatatgc-----attctgcattag-atccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
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-------ttttccttcctttaaggaaaaaactctttttataccaatattgggatttgtcgaagaatcttttttggcagcctttctaacagtgatta---tctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
upper sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S22_135V6.1 (Physcomitrella patens), 3'ss of exon 6
gtagctaacgtcacttcttcaacaaacacaaactgatgaaaaattctgagatatgcattctgcattagatccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
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gtgattgagg--atgtgaaaagtagcggggtagcgaggtgagggttgaggtgatactgaggatggaggggtttgggctggtcgggttggtgtatgtgtgcagGTGCTTGCAGCTGGAGACATGTGTGCGATATGTCAAGAGAAGATGCATGCTCCGATATCGCTGCGGTGCAAGCACATCTTCTGCGAGGATTGTGTGTCGGMapped 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|74237584|gb|DT645498.1|DT645498EST: CATTATCTCATAAAGACTTCCATTATGGTTCATATGCAACAAGTGAGCAG GTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTT
genomic: CATTATCTCATAAAGACTTCCATTATGGTTCATATGCAACAAGTGAGCAGgtagctaacg ... ctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagatatgcattctgcattagatccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
attagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagctaacgtcacttcttcaacaaacacaaactgatgaaaaattctgagatatgcattctgcattagatccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA