Sequence
atgc intronic sequence ATGC exonic sequence...atttcccattctaaagcgacaagtgcttatcaatgaaaatgccattctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062210_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g02540.1 (Oryza sativa), 3'ss of exon 1
atttcccattctaaagcgacaagtgcttatcaatgaaaatgccattctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
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ttgctttgtggccttgttgtgcgtacttctattctaaggtgatggcatacttattgaagaaactaacttttctggatttattttgtttctcaaattgcagACCAACCTTATCAAAGAGAGCATCAGAATGGGTTACAATGACATTGGTGATTTCTTCTATGCTCATGGCCACCTTTCAGATGCCTTCAAAAGCTACATCC
upper sequence: GRMZM2G062210_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT3G61140.1 (Arabidopsis thaliana), 3'ss of exon 1
-----atttcccattctaaagcgacaagtgcttatcaatgaaaatgccattctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
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gcattatgcatagctctttcatggtaatagcttgct--tgattcttaaattgcat-taatgttgattct-tcttcttgatatgtgtattgatatgtgta-tacagACAAATTTGATCAAGGAAAGCATCAGAATGGGTTACAATGACTTTGGAGATTTCTATTACGCATGTGGTATGCTCGGAGATGCTTTCAAGAACTATATCC
upper sequence: GRMZM2G062210_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0048g01980.t01 (Vitis vinifera), 3'ss of exon 1
atttcccattctaaagcgacaa-gtgcttatcaatgaaaatgccattctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
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ttttggtaggttataggggtaacgtacctttgtgcgaatg-gctgaagtacccattctgaatttcataatttgcctccttatggtgtgatcctttctgcagACAAATTTAATCAAAGAAAGCATAAGAATGGGATACAATGACTTCGGAGATTTTTACTATGCCCACGGTTTACTTGCGGATGCTTTTAAGAATTATGTTC
upper sequence: GRMZM2G062210_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S31_338V6.1 (Physcomitrella patens), 3'ss of exon 1
---------------------------------------------------------------------------------atttcccattctaaagcgacaagtgcttatcaatgaa-aatgccattctgcatgttg-tcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
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gtgtccgtctagccctttctttctggttaacggattttagggttaatcttctagtatttgggaatgacgaaagtgaaatttgtatggccttcttaatcaagtttcttgtatttatttgtgatgtctccttgtgagctaatcaagaatatgcaaggctttttttaacaagttgtttt-caacagACAAACCTGATCAAAGAGAGCATTCGAATGGGCTACAATGACCTCGGCGATTTCCATTATGCTCGCGGGGACCTTCAGCAAGCCTTCAAGTGCTACGTGCMapped 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|71775377|gb|DR973255.1|DR973255EST: GCGCCGACCAGCGCAAGGAGAAGCTCGAGAGCGAGCTCAATGGATACAGG ACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGAT
genomic: GCGCCGACCAGCGCAAGGAGAAGCTCGAGAGCGAGCTCAATGGATACAGGgtgcggaaat ... cttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
ctcttac putative branch site (score: 3)
ttctcttact CT-rich tract
taattcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcccattctaaagcgacaagtgcttatcaatgaaaatgccattctgcatgttgtcaatcctctctaattcaaatctacattgattctcttactgcagACTAACTTAATCAAAGAGAGCATCAGAATGGGCTACAATGACATTGGTGATTTCTTCTATGCCCATGGCCAACTTTCAGATGCTTTCAAAAGCTACATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG