Sequence
atgc intronic sequence ATGC exonic sequencegcagatgatctttttttcttctcttttacattgctcagctcttgttctctgaattctgatcctgtgcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G133331_T05 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os06g15480.2 (Oryza sativa), 3'ss of exon 6
---gcagatgatctttttttcttctcttttacattgctcagctcttgttc-----tctgaattctgatcctgtgcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
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gtggtgttttccacttgcttgatttctctgatctgtcatggcatctgcgcaaacatcgcaattctgattctgtgttgtgttgtgttt-------gcttctgcagGTACGTTGGCGTTCGACCTTGAGTACGCGCGGTGGCTGGACGAGCACCAGCGGCACATCAACGACCTGCGGGTGGCGCTGAACGCGCAGATGAGCGACGA
upper sequence: GRMZM2G133331_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ28227 (Selaginella moellendorffii), 3'ss of exon 5
gcagatgatctttttttcttctcttttacattgctcagctcttgttctctgaattctgatcctgt---gcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
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-----------------gtacgcgttaaagtcatgtggttttttctgtttctattgtttttccgttttggaatccagcgctgaccagttggaagtgcagGTGCTGCTGCGTTCGACATGGAGTACGGGCGGTGGCTGGAGGAGCAACAGCGACAAATGACCGAACTACGAACGTCATTGCAAGCTCATGTCTCGGACGA
upper sequence: GRMZM2G133331_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ29724 (Selaginella moellendorffii), 3'ss of exon 5
gcagatgatctttttttcttctcttttacattgctcagctcttgttctctgaattctgatcctgt---gcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
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-----------------gtacgcgttaaagtcatgtggttttttctgtttctattgtttttcggttttggagtccagcgctgaccagttggaagtgcagGTGCTGCTGCGTTCGACATGGAGTACGGGCGGTGGCTGGAGGAGCAACAGCGACAAATGACCGAACTACGAACGTCATTGCAAGCTCATGTCTCGGACGAMapped 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|211338561|gb|FL034882.1|FL034882EST: GATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGAG GCGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGC
genomic: GATGTTCATTGCAAGTGGACGCTCCGGAGATCATGGATGCTCCACTGGAGgcagatgatc ... gtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttctctgaattctgatcctgtgcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
gcctaac putative branch site (score: 2)
tgtcctt putative PPT
aatgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcagatgatctttttttcttctcttttacattgctcagctcttgttctctgaattctgatcctgtgcaatgtaaagcctaacctgtgtccttgcagGTGCGTTGGCGTTCGACCTGGAGTACGCGCGGTGGCTGGACGAGCACCAGCACCACATGAACGACCTCCGGGTGGCCCTGAGCGCGCAGATCGGCGACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT