Sequence
atgc intronic sequence ATGC exonic sequencegtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccattttgttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G070605_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g13770.3 (Oryza sativa), 3'ss of exon 8
-----------------------------------gtaacatgaatcacccgtttagcaattttagctggctttggcttgc---cacatgaagcctagtattt--actg---atctaccattttgttga------ccaatg-aatggtat--tgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
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gtaacccgttttcatgccatgcaaaaccaccaaattcatcgtatttttgtgcttcacaggatgtacctaagtttcattcttatgtaaacaaattccaattttttcattgactacctttcatctactagaacatcactaatgcaatcatgtcatgcagGTTGCTACAAACACTCTGGAGCGAGTGGCCCCTCTGACGCATGCCGTTGGCAATGTGTTGAAAAGGGTTTTCGTCATTGGATTCTCCATCATTGTTTTTG
upper sequence: GRMZM2G070605_T01 (Zea mays), 3'ss of exon 9
lower sequence: PP1S450_17V6.1 (Physcomitrella patens), 3'ss of exon 9
--gtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccattttgttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
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tgatagtgtggaatgaggg---ggcgagtttgccaggaggcgtcatggaatgttgg---tggcttttgttg-tgtaagagaagtaagagttgcggtgggttgtgcagCTTGCTAACAACACATTGGAAAGGGTTGCTCCCCTGACTCATGCCGTGGGGAACGTGTTGAAGCGAGTGTTTGTGATCGGGTTCTCCATCGTGGTGTTCG
upper sequence: GRMZM2G070605_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ15759 (Selaginella moellendorffii), 3'ss of exon 9
gtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccatttt-gttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
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-------------------------------------------------------gtaagactttagttcttttgcatcaaaggcggcttgtcaatgttttcccagATTGCTAACAACACTTTGGAGCGAGTGGCCCCTCTAACGCATGCTGTCGGCAACGTTCTAAAGAGAGTGTTCGTCATTGGTTTCTCTATCGTTATTTTCG
upper sequence: GRMZM2G070605_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ38162 (Selaginella moellendorffii), 3'ss of exon 8
gtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccatttt-gttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
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-------------------------------------------------------gtaagactttagttcttttgcatcaaaggcggcttgtcaatgttctcccagATTGCTAACAACACTTTGGAGCGAGTGGCCCCTCTAACGCATGCTGTCGGCAACGTTCTAAAGAGAGTGTTCGTCATTGGTTTCTCTATCGTTATTTTTGMapped 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|211010423|gb|FL349731.1|FL349731EST: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAG ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
EST:
gi|32851134|gb|CD990815.1|CD990815EST: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAG ATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
genomic: TTGTTAGTGACCTATTCTTGGTTGGACTGTTCTACCATCTGTACAACCAGgtaacatgaa ... ggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagcctagtatttactgatctaccattttgttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
tagtattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacatgaatcacccgtttagcaattttagctggctttggcttgccacatgaagcctagtatttactgatctaccattttgttgaccaatgaatggtattgcagATTGCTACGAACACCTTGGAGCGAGTGGCTCCTCTGACACATGCTGTGGGCAATGTGTTGAAGCGTGTGTTTGTCATTGGCTTCTCAATCGTTGTTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC