Sequence
atgc intronic sequence ATGC exonic sequencegtgagatttacaacataaaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctctttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52630.1 (Oryza sativa), 3'ss of exon 3
-------------------gtgagatttacaacataaaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctctttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
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tgacagctatgcagtacatgtgatatttatagctcaaaacattgttttattagatacttttgttttcaaatca--tctgacattttctcccttgga--cataagGAATTTTGGCATCAATGCATTGTCTGGATCTATTCCAAAGGAGTTTGGTAACCTTACGAATCTCATATCATT
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52640.3 (Oryza sativa), 3'ss of exon 4
gtgagatttacaacataaaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctctttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
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gtgagattcagaactcaaaacataattacattaaat-tcatctgttttgcagtaagtctcacattttatctcttgaacacactagGACTTTTGGCATCAATGCATTATCTGGATCTATTCCAAAGGAGCTTGGTAACCTTACAAATCTCGTATCCCT
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52606.2 (Oryza sativa), 3'ss of exon 3
gtgagatttacaacataaaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctct-ttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
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gtgagatatataactcaaaacataattacattaaatgcattt-gttttgcaataagtctcacatttttctcccttcaacacactagGACTTTTGGCATCAATGCATTATCTGGACCTATTCCAAAGGAGCTCGGTAACCTTACAAATCTCATATCACT
upper sequence: GRMZM2G155837_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 3'ss of exon 4
gtgagatttacaacata-aaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctctttcaaat-tacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
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gtgagatttagaactcacaaacatcattttagtaaatgtttt--gctttgcattgaatctcac-cttttctctcttgaacacacaagGACATTTCGCATCAATTCATTATCTGGACCTATTCCAAAGGAGCTCGGTAACCTTACGAATCTTGTATCACTMapped 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|18384226|gb|BM417425.1|BM417425EST: ACCGGGCCTTTGCCATCTTTCCTTGGGAATTTGACTGCTATGCAGTACAT GAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAA
genomic: ACCGGGCCTTTGCCATCTTTCCTCGGGAATTTGACTGCTATGCAGTACATgtgagattta ... aaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacatgttttttacttaacatcaaatcttaaacttttctctttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
acttaac putative branch site (score: 3)
cttttctctttca putative PPT
ttttttacttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatttacaacataaaatattaccctgttacatgttttttacttaacatcaaatcttaaacttttctctttcaaattacaagGAGTTTGGGCATCAATGCATTGTCTGGATCTGTTCCAAAGGAGCTTGGGAACCTTGTGAATCTTGTATCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT