Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttttgaattttagaagtcagaactcatgttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g11500.1 (Oryza sativa), 3'ss of exon 8
gtaagtt--tttgaattttagaagtcagaactcatgttgatgaacttcctgaggttattgggggctaatttattgttt--ctatgt-tctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
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gtaagcggatttacatgatgaatttcataacc--ttttaaattttcttttaaaatgtttgttcgttaactaattatttgactatctgtatagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCGTTAACCCAGCATTTTGCACTTGCCAATAATGCAGCTGATATATCTGCAAAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
-----------gtaagtttttgaattttagaagtcagaactcat--gttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
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attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G13010.1 (Glycine max), 3'ss of exon 4
---------gtaagtttttgaattttagaagtcagaactcatgt---tgatgaacttcctgaggttat-tgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
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ttaaggcattttttttcttatatttcctgattgatagtttatttgtgtactaatttttttttgtttatattttctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGAGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
lower sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
----gtaagtttttgaattttagaagtcagaactcatgttgatgaacttcctgaggttattgggggctaatttattgt--ttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
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gtgcgtatcatttcttgcatcaaacatt-gaagttaagacttcggtttggattgatacatcggtttttaacttttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
upper sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv01s0011g00500.t01 (Vitis vinifera), 3'ss of exon 8
----------------gtaagtttttgaattttagaagt-cagaactcatgttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
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tattgtcagtggaattgaaaatacttctgctgaataagaataatgcacattgtgttgatatttctca--tca--aaaatctaattttacactcttcaaaattagCTGGTGTTGCAAGTGGAGCAACTAGAGCTGCATTGACACAACATTTTGCTCTTCAAAATAATGCTGCAGATATATCTGCCAAGMapped 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|88755251|gb|DY539392.1|DY539392EST: TTCATCGTTGATAGTTATAATGTGCTTAGGCAGCCTGTCTAGGTCATTCA CTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCAC
genomic: TTCATCGTTGATAGTTATAATGTGCTTAGGCAGCCTGTCTAGGTCATTCAgtaagttttt ... tatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCAC
EST:
gi|18648891|gb|BM497710.1|BM497710EST: AATGTGCTTAGGCAGCCTGTCTAGGTCATTCA CTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCAC
genomic: AATGTGCTTAGGCAGCCTGTCTAGGTCATTCAgtaagttttt ... tatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
ggctaat putative branch site (score: 3)
ttgtttct putative PPT
taatttattgtttcta 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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gtaagtttttgaattttagaagtcagaactcatgttgatgaacttcctgaggttattgggggctaatttattgtttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG