Sequence
atgc intronic sequence ATGC exonic sequence...ttttctgtgatgggcccattgtgatgaatatagctgtcatgttcaacttttaaagctgcatattgtctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G124091_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G03380.1 (Glycine max), 3'ss of exon 3
ttttctgtgatgggcccattgtgatga-atatagctgtcatgttcaacttttaaagctgcatattgt--ctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
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---------gtaagttcattaggttctcatatcccaattattcactcttttttttttctctctctgaaacgcaggtttcttactttgctttttcttctgtcagGAATTGGTTATAATGGATTTCCAAGAGGTTGTTCTGATGACAAGCTACCCTGGGCAAAG
upper sequence: GRMZM2G124091_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 2
ttttctgtgatgggcccattgtgatgaatatagctgtcatgttcaacttttaaagctgcatattgtctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
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---------gtaagttcatta-aattatcatatccattattcactttatttttctgtgaaaagcagatttgt-----tactttgctttttcttccgtcagGAATTGGTTATAATGGGTTTCCAAGAGGTTGTTCTGATGACAAGCTACCCTGGGCACAG
upper sequence: GRMZM2G124091_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g01370.t01 (Vitis vinifera), 3'ss of exon 3
ttttctgtgatgg--gcccattgtgatgaatatagctgtcatgttcaacttttaaagctgc-atattgtctttgacaacgtaactcag--ttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
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-----gatcatagttactgagcatcattcagattgtaatgtgctttgagtttgatcgccgttatgatagttcttacaccatcattcggattctcttcttggtcagGCATTGGCTATAATGGGTTCCCAAGAGGCTGTTCAGATGACAAGCTCCCTTGGGCAAAG
upper sequence: GRMZM2G124091_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ05614 (Selaginella moellendorffii), 3'ss of exon 1
ttttctgtgatgggcccattgtgatgaatatagctgtcatgttcaacttttaaagctgcatattgtctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
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--------------------------------------gtatgaaacatttc--tcttccagttttctcgagtttctcccgctaatgctggactctccagGCATTGGCTACAACGGCTTTCCTCGAGGTTGCTCCGACGATAAGCTTCCCTGGGCCAAAMapped 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|76912349|gb|DV164688.1|DV164688EST: GTTGGAGCATGCTTGGTTAGCCAAGAGGGAATAATCCTAG GAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTT
genomic: GTTGGAGCATGCTTGGTTAGCCAAGAGGGAATAATCCTAGgtgaggatga ... ttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttaaagctgcatattgtctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
acgtaac putative branch site (score: 3)
ttgttttct putative PPT
ttttctaa 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
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ttttctgtgatgggcccattgtgatgaatatagctgtcatgttcaacttttaaagctgcatattgtctttgacaacgtaactcagttgttttctaaccagGAATTGGCTACAATGGCTTCCCTAGAGGTTGTTCCGATGACAAGCTTCCTTGGGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG