Sequence
atgc intronic sequence ATGC exonic sequencegtgaggtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G179097_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g41100.3 (Oryza sativa), 3'ss of exon 7
-------------------gtgaggtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA------------------------------------------------------------------
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gtcagatacactctgaggtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagcaggcatggtgctggtttaagttgata-ggtacct------ggcccatcatagaaattttgttgcagGATTAAC--TCCAACCAGATTGATCATAAAAGCAGTCTAATCTGCCTGCATCGTAAGGTGTGGCATGTTGGCTTTTATTGGTTAACAGCAGTTTCACCTTTG
upper sequence: GRMZM2G179097_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g41100.1 (Oryza sativa), 3'ss of exon 7
--gtgaggtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA---------
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gtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagcagGCATGGTGCTGGTTTAAGTTGATA-GGTACCT------GGCCCATCATAGAAATTTTGTTGCAGGATTAAC--TCCAACCAGATTGATCATAAAAGCAGTCTAATCTGC
upper sequence: GRMZM2G179097_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g41100.4 (Oryza sativa), 3'ss of exon 7
--gtgaggtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA------
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gtgagatgtgccatggacatgaagtatcacg-catcttggtgtctaccagcaactgatagtgttctttagCAGGCATGGTGCTGGTTTAAGTTGATA-GGTACCT------GGCCCATCATAGAAATTTTGTTGCAGGATTAAC--TCCAACCAGATTGATCATAAAAGCAGTCTAATCMapped 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|31664322|gb|CD573047.1|CD573047EST: TATGCTTCACACTGAAATCCCTGAGTTCATGAGGTTAGATATCTTCTGAG GCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGA
genomic: TATGCTTCACACTGAAAT-CCTGAGTTCATGAGGTTAGATATCTTCTGAGgtgaggtgcc ... tctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA
aactgat putative branch site (score: 3)
tgttcttt putative PPT
ttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggtgccatggacatgaagtatcacatcttctcggtgtctagcagcaactgatagtgttctttagcagGCTTGGTACCGGTTTAAATGGATAAGGTTTCTCCTTGTGGCCCATCATAGAAATTTTGTTGCAGGATTAACGCTTCATCCAGATCGATCATAAAAGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA