Sequence
atgc intronic sequence ATGC exonic sequencegtcagctataaaatgaacacagttcacgcagaccattgtatcaacaaaaatgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141535_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g57680.1 (Oryza sativa), 3'ss of exon 8
-------------------------------gtcagctataaaatgaacacagttcac-gcaga-ccattgtatcaacaaaa----------atgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
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gtcagtcaatctactaaattaccttcaaaatatcagttgcatctgcaattctgcgcgttgcaaaatcattgcaagaatgagatgtaaattatatgtgatctgaatgtgcaatcgttgttttttgt--gatcagGTGGAAGGCGCATTCGTGCAAGGGATCGGCTTCTTCACGAACGAGGAGTACACGACCAACTCCGATGGGCTGGTCATCAACGACGGCACGTGGACGTACA
upper sequence: GRMZM2G141535_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os10g04860.1 (Oryza sativa), 3'ss of exon 8
---------------gtcagctataaa-atgaacacagttcacgcagaccattgtatcaacaaaaatgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
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gcaagaccaatgaaatccatgtgtaaatatatatgtataatctgaatgcaagattgttagctgaatattgttgatttt-----ggcggtctccatcgataatc-agGTGGAAGGCGCGTTCGTGCAAGGTGTGGGCTTCTTCACGAACGAGGAGTACGCGACCAACGCCGATGGGCTGGTCATCCACGACGGCACATGGACGTACA
upper sequence: GRMZM2G141535_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g57720.1 (Oryza sativa), 3'ss of exon 1
gtcagctataaaatgaacacagttcacgcagaccattgtatcaacaaaaatgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
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-------------------------------------gtaatactaaatatgtataaact------gaatgttgttgatc--ttggttagGTGGAAGGCGCATTCGTGCAAGGGATCGGCTTCTTCACGAACGAGGAGTACGCGACCAACTCCGATGGGCTGGTCATCCACGACAGCACGTGGACGTACAMapped 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|62525891|gb|DN828539.1|DN828539EST: TGGTGTATGACTGCGGGCAGAGCCTAAACCCTGCTGTAGACTTGGGCCAG ATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTAC
genomic: TGGTGTATGACTGCGGGCAGAGCCTAAACCCTGCTGTAGACTTGGGCCAGgtcagctata ... atttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtatcaacaaaaatgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
ctctaaa putative branch site (score: 3)
tttatcc putative PPT
aacaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagctataaaatgaacacagttcacgcagaccattgtatcaacaaaaatgtgctcctcctctaaaaacactgttcatcatttatccagATCGAGGGCTGCTTTGTCCAAGGAATAGGGTTCTTCACGAACGAGGACTACAAGACGAATTCCGACGGCTTGGTCATCCACGACGGCACATGGACGTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA