Sequence
atgc intronic sequence ATGC exonic sequencettttcgtgcctttctgtttggttataatcattttgatctggaaaactaacatttattctttttttgttatatgctgcatgtttgtgagcagagtgaaggtaacactgcatttgcgtgacttataagcctgcaataggaacatggatagttttttaatggaaatgcttgtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 8
ttttcgtgcctttctgtttggttataatcattttgatctggaaaactaacatttattctttttttgttatatgctgcatgtttgtgagcagagtgaaggtaacactgcatttgcgtgacttat-aagcctgcaataggaacatggatagttttttaatggaaatgcttgtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
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---------------------------------------------------------------------------------------gtaatgttccatctcca-tggatctatctggataattgaaatagaaatagaattctgtgaagctgttaatgacatatgtttgttttttcagGGGCAAGATGTTGCTTTTGAACCAGCAAAGCTTCTTTGGCTTATCCAGAGGGATTTCCTGC
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G38840.1 (Arabidopsis thaliana), 3'ss of exon 8
ttttcgtgcctttctgtttggttataatcattttgatctggaaaactaacatttattctttttttgttatatgctgcatgtttgtgagcagagtgaaggtaacactgcatttgcgtgacttataagcctg--caataggaacatggatagttttttaatggaaatgcttgtttctt-cagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
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--------------------------------------------------------------------------------------------------gta-taccctaacggaatggctgttattcttgatccatggcatccttcaaaacttcgtttctgatttttatatatcctgtagGGTGAAGATGTTGCTTTTGAACCGTCAAAGCTTCTGTGGCTTATCCAGCGTGATTTTCTGC
upper sequence: GRMZM2G019361_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0141g00110.t01 (Vitis vinifera), 3'ss of exon 8
ttttcgtgcctttctgtttggttataatcattttgatctggaaaactaacatttattctttttttgttatatgctgcatgtttgtgagcagagtga-aggtaacactgcatttgcgtgacttataagcctgcaataggaacatggatagttttttaatggaaatgcttgtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
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--------------------------------gtaatcttcaagccagttttattttctttttttgct-tatg-tatattctctggtttgttgtaataaatctttctaaaagtgaatg-cttttaa---taaagctgatctttttcttgtttttgaatggatat---------tgcagGGACAAGATGTTGCCTTTGAACCTGCTAAGCTTCTGTGGCTTATCCAACGTGATTTTCTACMapped 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|31361636|gb|CD445993.1|CD445993EST: TTCATTTGCCATTGAAATTGCTGAAGAATTCTATGGAAGAGT--GA--AG GGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGG
genomic: TTCATTTGCCATTGAAATTGCTGAAGAATTCTATGGAAG-GTTTGTTCATttttcgtgcc ... gtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagcctgcaataggaacatggatagttttttaatggaaatgcttgtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
ttttaat putative branch site (score: 3)
cttgtttcttc putative PPT
ttttttaatggaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcgtgcctttctgtttggttataatcattttgatctggaaaactaacatttattctttttttgttatatgctgcatgtttgtgagcagagtgaaggtaacactgcatttgcgtgacttataagcctgcaataggaacatggatagttttttaatggaaatgcttgtttcttcagGGGCAAGATGTTGCTTTTGAGCCAGCAAAGCTTCTCTGGCTTATCCAGAGGGATTTCCTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG