Sequence
atgc intronic sequence ATGC exonic sequence...tttttcctgtagcgaaatagttctgatcatggcgtgtggcttattttgcgattctggatgattggtacaatccgaaagccatatatttgttgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 3'ss of exon 14
tttttcctgtagcgaaatagttctgatcatggcgtgtggcttatt--ttgcgattctggatgattggtacaatccgaaagccatatatttgttgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
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-gtttgtcatcagggcttgggacc-attttgttgtttttctgaataataatatctccaaaaatatgggatagatacacttataggagtttgttatgctgcagGGTTGGAGATCCATTTAAAGACACGGCGGGGCCTTCCATCCATGTTCTTATTAAGATGCTCGCTACAATCACATTAGTGATGGCTCCAATATTCTTGTGA
upper sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 15
---------------tttttcctgtagcgaaatagttctga--tcatggcgtgtggcttattt--tgcgattctggatgattggtacaa-----tccgaaagccatatatttgttgtg----ctgcagG-GTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
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gtaagcaatctttcattttccttgtgcttcccttcttcttagttcctttctcattggtcatttccttttacttataaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA
upper sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 14
tttttcctgtagcgaaatagttctgatcatggcgtgtggcttattttgcgattctggatgattggtacaatccgaaagccatatatttgttgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
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aactttcaaaaacctgtttttagtagaaaaccattttcaagcattccctaattattgtatttccaaaaattacataacgcccattttccttggtgtgcagTGTGGGAGACCCCTTCAAAGACACGGCTGGACCGTCGCTCCATGTTCTAATCAAAATGTTGGCAACCATCACTCTGGTCATGGCACCGGTCTTTCTGTGA
upper sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S105_42V6.2 (Physcomitrella patens), 3'ss of exon 15
tttttcctgtagcgaaatagttctgatcatggcgtgtggcttattttgcgattctggatgattggtac--aatccgaaagccat-atatttgttgt---gctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
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----tcatttagt-atttaactttcacgaaacgaagtgatacaagtttcgag-ctgaatgtttcttctggagacaggaacttatcacattcatttttggattgcagAGTTGGAGATCCTTTTAAAGATACTGCTGGACCTTCTCTCCATGTGCTAATCAAGATGCTCGCTACCATCACACTGGTCATGGCACCGCTCTTCCTGGACMapped 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|32849440|gb|CD989121.1|CD989121EST: CTTGGTGGCAAGGGCAGCGAGTCCCACAAGGCTGCGGTTACTGGCGACAC GGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTAT
genomic: CTTGGTGGCAAGGGCAGCGAGTCCCACAAGGCTGCGGTTACTGGCGACACgtaagtttct ... tgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcgattctggatgattggtacaatccgaaagccatatatttgttgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
atatatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttcctgtagcgaaatagttctgatcatggcgtgtggcttattttgcgattctggatgattggtacaatccgaaagccatatatttgttgtgctgcagGGTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - ctgtagc
- - - - - - - - - - ttctgat
- - - - - - - - - - - - - - - -gcgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctggatg