Sequence
atgc intronic sequence ATGC exonic sequence...aggctgcagagtcggacaccccactcctctcttccacctctgtccgatcttgccgcctcttggagagaaaagacctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G000842_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g37170.8 (Oryza sativa), 3'ss of exon 1
-----aggctgcagagtcgg-acaccccactcctctcttccacctctgtc--cgatcttgccgcctcttggagagaaaaga-------------cctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
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gtgtgatcccacaactcccctacatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagcagCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
upper sequence: GRMZM2G000842_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g37170.3 (Oryza sativa), 3'ss of exon 2
aggctgcagagtcggacaccccactcctctcttccacctctgtc--cgatcttgccgcctcttggagagaaaaga-------------cctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
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---------------acatcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagCAGCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGT
upper sequence: GRMZM2G000842_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g37170.5 (Oryza sativa), 3'ss of exon 3
aggctgcagagtcggacaccccactcctctcttccacctctgtc--cgatcttgccgcctcttggagagaa-------------aagacctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
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------------------tcttgcttctgtcttctttctttgtctacatttttgcaacctcttgaggaaaagagagcgattgacaaggcctttaattccatttgtatgtatgcagcagCAGGATATCTTGCAGCTAGGCCCCCCACACTGGAAATCTTCCCTTCATGGCCAATGAGTCATCTACAGGAGCCATACAGTMapped 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|78108047|gb|DV526465.1|DV526465EST: ATCTGTTGATCACGGCATGATCGGAAGTGATGTGGACACAGAGCGTAAGA CAGCTGGATACCTTGCAGCTAGGNNNNNNNACACTGGAGATCTTTCCTTCA
genomic: ATCTGTTGATCACGGCATGATCGGAAGTGATGTGGACACAGAGCGTAAGAgtaagattgc ... atgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCC-ACACTGGAGATCTTCCCTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcttgccgcctcttggagagaaaagacctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
ctttaat putative branch site (score: 4)
tttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggctgcagagtcggacaccccactcctctcttccacctctgtccgatcttgccgcctcttggagagaaaagacctttaattccatttgtatgtatgcagCAGCTGGATACCTTGCAGCTAGGCCCCCCACACTGGAGATCTTCCCTTCATGGCCAATGAGTCATCTACAGCAGCCATACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC