Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcagctatttcaaaacgttttcctgtttcttttcccattcttgtagctaattaattgacataattttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G115564_T02 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os06g44230.1 (Oryza sativa), 3'ss of exon 16
gtgagttcagcta-tttcaaaac--gttttcctgtttcttttcccattcttgtagctaat-taattgacataattttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
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gtaagtaaaaccaatttctggattgatttttccgttctttctttcattactgcgattaatatcgctgtcacaatttccagATTGCACTCCAGCGGCAAAAGGCAGCTTTTCCCCCAAATTTTGTGCACTCTCTTGATAGTTCACACATGATGATGACTGCTATTGCATGCAAAAAGGCTG
upper sequence: GRMZM2G115564_T02 (Zea mays), 3'ss of exon 16
lower sequence: GLYMA04G24350.1 (Glycine max), 3'ss of exon 11
gtgagttcagctatttcaaaacgttttcctgtttcttttcccattcttgtagctaattaattgacataat-tttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
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gtaagtatagataat-ctttatattccact-tttcttttctttctgaactattttcattattaagactgtattccagGTATCTGTCAAGAAGCAGAGAAGTGCATTTCCTCCAAACTTTGTACATTCATTGGATAGTTCACACATGATGATGACTGCTCTAGCTTGCAATGACGCTG
upper sequence: GRMZM2G115564_T02 (Zea mays), 3'ss of exon 16
lower sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 16
gtgagttcagctattt--caaaacgttttcctgtttcttttcccatt-cttgtagctaattaa---------ttgacata--attttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
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gtgagcttacgtctttgtcttagattcagcttgtgtctttttctaacacttgcagttacctagaatttttctttcatatgccaactccagGTTGTGATTAGGAAACAGAGAACTGCATTTCCACCAAATTTTGTTCACTCACTTGATGGTTCACACATGATGATGACCGCTGTTGCCTGCAGGGATGCTG
upper sequence: GRMZM2G115564_T02 (Zea mays), 3'ss of exon 16
lower sequence: PP1S246_118V6.1 (Physcomitrella patens), 3'ss of exon 18
----------------------------------------------------------------------------------gtgagttcagct-atttcaaaacgttttcctgtttcttttcccattcttgtagctaattaattgacata----attt--tcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
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gtaattccgacttgtcccctccatttattaacactctagcctttatttcctctattcagaattaaatcttgcatagtatttttttggttctgttcatttatgtactgttggctaaggtctgtgccataagtatgcataacctgggtgcattttacatttcatcagGTTCTGGCATCAAGACAACGAAGTGCGTTTCCACCTAATTTTGTGCACTCTTTAGATAGCTCTCACATGATGATGACAGCCCTTGCTTGTAGTAAAGCGGMapped 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|211090146|gb|FL283408.1|FL283408EST: ATACGAACTTCTTTGCAATGTCTGGCTTTACGGCGGGAGGGTGATGCA ATTGCAATCCMAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCA
genomic: ATACGAACTTCTTTGCAATGTCTGGCTTTACGGCGGGAGGGTGATGCAgtgagttcag ... taattttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgttttcctgtttcttttcccattcttgtagctaattaattgacataattttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
aattgac putative branch site (score: 3)
ttttc putative PPT
taattaattgacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcagctatttcaaaacgttttcctgtttcttttcccattcttgtagctaattaattgacataattttcagATTGCAATCCAAAGGCAAAAGGCAGCTTTTCCACCAAATTTTGTGCACTCACTGGATAGTTCACATATGATGATGACAGCGATTGCTTGCAAGGAGTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG