Sequence
atgc intronic sequence ATGC exonic sequence...tacagttggtcatactttacattttattatcccacacacataacttaaatgcagtaagttcctctgagggtatctaataatttcaaattccatcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g49570.1 (Oryza sativa), 3'ss of exon 3
tacagttggtcatactttacattttattatcccaca----cacataacttaaatgcagtaagttcctctgagggtatctaataatttcaaattccatcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
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---gcttgatcatacacttt-cattgctgttccacaaaatcaagctaattgaatgtagcaagttcctttctgggtatctaatgcttttgaactcaattggtaagGTGTTCTTGAGAAAGTCGGGATAGAACCAGAAATTCAGCGAATTGGTCGTTACAAAAGTGCGGGAGACCAACTTGCACGGAAGAGCATGTCAAATGAGGT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G09020.1 (Glycine max), 3'ss of exon 3
tacagttggtcatactttacattttattatcccacacacataacttaaatgcagtaagttcctctgagggtatctaataatttcaaattcca--tcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
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gacaccggtctctgacttaggaccaaaaatag-acccttgttctttgatgactata-gttagcctaaaactaattttttatgtcatttattaattctcttagGTGTTTTAGAGAATCTTGGAATTGAACCAGAAGTGGAAAGGATTGGCAAATACAAAAGTGTAGGAGATCAACTTACCCGTAAAACCATGTCTGAAGATCA
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G31180.1 (Glycine max), 3'ss of exon 3
tacagttggtcatactttacattttattatcccacacacataacttaaatgcagtaagttcctctgagg--gtatctaataatttcaaattccat-cggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
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-attattgaatat-taataaatcattttaaat-atttaaattctatgatggctataaataagcctaaacttgtgtttgacatcattttattacttgttttcagGCGTTTTAGATAACATAGGAATTGAACCACAAGTGGAAAGGATTGGAAAATACAAAAGTGCAGGAGATCAACTAGCTCGAAGAACCATGTCTGAAGAAAA
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g04680.t01 (Vitis vinifera), 3'ss of exon 3
tacagttggtcatactttacattttattatcccacacacataacttaaatgcagta-agttcctctgagggta-tctaataatttcaaattccatcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
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aatagaagatgatcttttaaaattggatcactgtgtgagaggagttgtctttattttggtttctctgactgaagtggagtggcttcaaattgttttgt--agGTGTTTTTGAGAAAGTAGGAATTGAACCACAAGTGCAAAGGATTGGTAAATACAAAAGTGCAGGGGATCAACTTACACGCAAAACGATGTCTGAAGAAAAMapped 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|8102637|gb|AW927287.1|AW927287EST: TGCTTATGTTGCCCTGTTTGGCCTAACTGTTCAGCAAACATTTCTCAGAG GTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAACGAATTGGTAAAT
genomic: TGCTTATGTTGCCCTGTTTGGCCTAACTGTTCAGCAAACATTTCTCAGAGgtaatttctt ... catcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatgcagtaagttcctctgagggtatctaataatttcaaattccatcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
atctaat putative branch site (score: 3)
ttccatc putative PPT
tatctaataatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacagttggtcatactttacattttattatcccacacacataacttaaatgcagtaagttcctctgagggtatctaataatttcaaattccatcggtaagGTGTCCTTGAGAAAGTTGGAATTGAACCGGAAATTCAAAGAATTGGTAAATACAAAAGTGCCGGAGATCAACTTGCACGCAAGAGCATGTCAAATGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA