Sequence
atgc intronic sequence ATGC exonic sequencegtaagttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os02g49570.1 (Oryza sativa), 3'ss of exon 8
gtaagttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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gtaagttatgcttcagatttcaccaatttatt-------------agcagcagagtttc----gttatgtattggttgttgttatttgaactagGATGTGGCGGGAAATTCGACTCCTAGCTGACACCAAGCCTGTGGTTGCTTCAATGTCTGATGTTGCTGCAAGTGGTGGGTACTACATGGCAATGGCTGCA
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA04G31180.1 (Glycine max), 3'ss of exon 8
-----gtaagttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaaca--tattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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atgatgatagttttgctaagttttctgttgatttgcatgttta-ggtgatcatattatgatgccaagaatcctaatcattatatggtgtcatgatctgcagGATGTGGAGAGAAATCCGGCTTTTGGCTGCTTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA06G22870.1 (Glycine max), 3'ss of exon 9
-gtaagttacgccttaggatttagtgat--ttgcttctcagcagcagcagcagcagagttttttcagtaacat-attacgaattcttatttcaact--agGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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tttcaaatacatctacaattgttgtcatgatgacagttttgctaagtattttgttgatgatgccaagaatcttgatcattatctggtgcatgatctgcagGATGTGGAGAGAAATCCGGCTTTTGGCTGCTTCAAAACCGGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA05G07540.1 (Glycine max), 3'ss of exon 9
gtaagttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatttcaacta---gGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA---------
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gtgatctttgtcatgaaatt--atgat--gctaagtgcaagtatt--ttgttgagttcgcttgtttaagtataaagtttttttgtcatgatcttctggatgtggagAGAAATCAGGCTTCTGGCTGCCTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCAGGAGTTATT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 1
gtaagttac--gccttaggatttagtgatttgcttctcagcagcagcagca-gcagagttttttcagtaacatattacgaattcttatttcaact---agGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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aaaacttatctgatctttgtcatgaaattatgatgctaagtgcaagtattttggtgagtttgcttgtttaactataaagttttgttgtcatgatctgcagGATGTGGAGAGAAATCAGGCTTCTGGCTGCCTCAAAACCAGTCATTGCTTCAATGTCTGATGTGGCAGCAAGTGGAGGGTACTACATGGCAATGGGAGCA
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: AT1G73990.1 (Arabidopsis thaliana), 3'ss of exon 8
-gtaagttacgccttaggatttagtg---atttgcttct--cagcagcagcag-cagcagagttttttcagtaacatattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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tatctatctagcctagaggtcatgtgtggatttgaatttaatagctttggaaatccttctaggctttattataatct-tcattattcataatggtatacagAATGTGGAGGGAGATCAAACTACTGGCTGAAACAAAACCCGTCATTGCGTCAATGTCAGATGTGGCAGCAAGTGGAGGCTACTACATGGCAATGGCTGCA
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 4
----gta-agttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatt-tcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
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gcttgtacagatgaaaaaagagaaggaatgagaaaagaaaaatgcatgacaaatataatgagctcccactaattggtccttaatttttatgattatgcagAATGTGGAGGGAAATCAGACTTCTGGCTGCCTCAAAACCTGTCATTGCATCAATGTCTGATGTGGCTGCTAGCGGAGGGTACTACATGGCAATGGGAGCAMapped 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|9461487|gb|BE453757.1|BE453757EST: GTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT GATGTGGAGAGAAATCCGACTACTAGCCAACTCTAAACCTGTAGTTGCTTC
genomic: GTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCTgtaagttacg ... tttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcagcagcagcagagttttttcagtaacatattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
cagtaac putative branch site (score: 2)
ttcttatttc putative PPT
aattcttatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttacgccttaggatttagtgatttgcttctcagcagcagcagcagcagagttttttcagtaacatattacgaattcttatttcaactagGATGTGGAGAGAAATCCGACTTCTAGCCAACTCTAAACCTGTAGTTGCTTCGATGTCTGATGTTGCTGCAAGTGGGGGCTACTACATGGCAATGGCTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC