Sequence
atgc intronic sequence ATGC exonic sequence...gagtgaagtacacctatctttcatataattgaaaagtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g06750.1 (Oryza sativa), 3'ss of exon 4
----------------------------gagtgaagtacacctatct-ttcatataattgaaaagtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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gtcagtaacctactgttattttactatcttgtattttgagcccttctattcagttaattggatggtaaccatgtgctgtaaat-------tgtttgttcattctcattctaaatctttatgtgcttcagATTAGGAAAATGAAGGGCTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGATCAATGGTGGTACCATTGCCGATAAGGTGGACTATGGATACAAGT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G30810.1 (Glycine max), 3'ss of exon 4
--gagtgaagtacacctatctttcatataattgaaaagtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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ccttctattttgtgtttgtcaaattccaaattcagagtccttccagttatcacatgatttagatatattcctaatagcctgtctggc--ttaaatcttacagATCAGGAAAATGAAAGGGTTGAAGCAGAAGAAAGCCCATATCATGGAAATTCAGGTTAATGGTGGTACTATTGCACAGAAGGTGGACTTTGCATACAGTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G36780.1 (Glycine max), 3'ss of exon 4
gagtgaagtacacctatctttcatataattgaaa-----agtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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---ttatgttcttttaattccaaattaagagtcacttccaattatcacaaattatcatg-attgagatttattcctaatagtctgtctgc-cttgaatcttacagATCAGGAAAATGAAAGGGTTGAAGCAGAAGAAAGCCCATATCATGGAAATTCAGGTTAATGGTGGTAGTATTGCACAAAAGGTGGACTTTGCATACAGTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: AT1G43170.7 (Arabidopsis thaliana), 3'ss of exon 4
gagtgaagtacacctatctttcatataattgaaaagtg-attattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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-------gtaagtttgctt---attgaatggaagtgtatatcataaactcttctgcactacgttcttactgac---aattctatgtgacctctaattacagATCAGGAAGATGAAGGGATTGAAGCAGAAGAAGGCTCACATGATGGAGATCCAGATCAATGGTGGTACCATTGCCCAGAAGGTTGACTTTGCCTACAGTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: AT1G61580.1 (Arabidopsis thaliana), 3'ss of exon 4
gagtgaagtacacctatctttcatataattgaaaagtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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---------------gtatgccatttacttcaaat-tcacaatcattttgcaaatttcatttgtttctga--ttacgattgttggat----atgttttagATAAGGAAAATGAAAGGGCTGAAGCAGAAGAAGGCACATCTGAATGAGATTCAGATCAATGGTGGAGATATAGCAAAGAAAGTTGACTATGCCTGCAGTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0072g00340.t01 (Vitis vinifera), 3'ss of exon 4
--gagtgaagtacacctatctttcatataattgaaa-agtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
||| | | || |||| | | | || | || | || | | ||| | |||| | | | || | || | | |||||||||||||||||||| |||||||||||||| || ||| |||||||||| |||||||||||||| ||||||||| | || ||||| |||| || |
ttatttgacgcttgtcaatacttcaaaatttagttccagctctcatatcccctaaatgatcct-tatcctctaactaatttctctggtcatggtgt--tatagATTAGGAAGATGAAGGGATTGAAGCAGAAGAAAGCACACTTGATGGAGATCCAGGTCAATGGTGGAACCATTGCTCAGAAAGTGGATTATGCTTATGGTT
upper sequence: GRMZM2G324314_T05 (Zea mays), 3'ss of exon 4
lower sequence: Vv12s0035g01020.t01 (Vitis vinifera), 3'ss of exon 3
--------gagtgaagtacacctatctttcatataattgaaaagtgattattttttctg--aggcactaggtattagcaaactcaccttttatgtatttg-tatattt-tagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
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gtagttttccatcaccaatatttgggattcaaagactttaggtttcacatttataaatgcaagttaccaattatttg-gcactgacatatcctatatggaatggatttgtagATTAGAAAAATGAAGGGCCTGAAGCAGAAAAAGGCTCACCTTATGGAGATTCAGGTGAATGGTGGAGATGTTGCTAAGAAGGTTGACTATGCCTATGGTTMapped 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|116821347|gb|EC864647.1|EC864647EST: AGAAGATGAAGAAATATGCTTCTGTTATCCGTGTCATTGCTCATACCCAG ATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATT
genomic: AGAAGATGAAGAAATATGCTTCTGTTATCCGTGTCATTGCTCATACCCAGgtaagaagct ... tatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
aactcac putative branch site (score: 2)
ttttatgtatttgtat 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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gagtgaagtacacctatctttcatataattgaaaagtgattattttttctgaggcactaggtattagcaaactcaccttttatgtatttgtatattttagATTAGGAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTGATGGAGATTCAGGTCAATGGTGGTACCATTGCTGACAAGGTGGACTATGGCTACAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA