Sequence
atgc intronic sequence ATGC exonic sequencegcaagtccatcccttatgtggtatatgtacttctggaaagataaaaacccatctcatgtaaattgatcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g01710.2 (Oryza sativa), 3'ss of exon 7
gcaagtccat---cccttatgtggtatatgtacttctgg-aaagataaaaacccatctcatgtaaattgatcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
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gtaaatctactgacatacatgttatatatgtttttctactggacattggactccatcttatatccattgatgatgtcagGGACTGGCCAGTTGACAAGTTGAAAGAAGTAAAAGTTGCTGATGCTTTAAAGCACCCGAACTGGAATATGGGGAAGAAGATTACTGTAGATTCTGCTACA
upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 7
----------gcaagtc---catcccttatgtggtatatgtacttctggaaagataaaaacccatctca-tgtaaat----------tgatcat-gacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
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tttgatcatggaaaacctggcattgttgctctcttagttctgcttccaggctctacataattgatttgactataagtatcattcccttggtgattgacagGGATTGGCCAGTTGATAAACTGAAAGATGTTAAAGTTGCTGATGCATTAAAACATCCTAACTGGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACC
upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G09740.1 (Glycine max), 3'ss of exon 7
----------gcaagtccatcccttatgtggtatatgtacttctggaaagataaa---aacccatctca-tgtaaat----------tgatcat-gacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
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tttgatcaaggaaaacctgccattgttgctctcttagttctgtttccaggctctatataatcagtttgactataagtatcatccccttgatgattgacagGGATTGGCCAGTTGATAAACTGAAAGATGTTAAAGTTGCTGATGCATTAAAACATCCTAACTGGAATATGGGGAAAAAGATAACTGTGGACTCTGCTACC
upper sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT5G62790.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------gcaagtccatcccttatgtggtatatgtacttctggaaagataaaaacccatctcatgtaaattgatcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
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gtttgtttcgatattcttctctctctgcatagactttttttcttctcaattctcgtttggtta-atggaaacttttcac-tggattttga----aaaagGGATTGGCCTGTCGAAAAGCTAAAGGAAGTTAAAGTAGCGGATGCGTTGAAGCATCCAAACTGGAACATGGGAAAGAAAATCACTGTGGACTCTGCTACGMapped 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|14206809|gb|BG840487.1|BG840487EST: GAAGGTGCACTTCGTCGCATTATTCTAACTGCATCAGGTGGTGCTTTCAG GGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAA
genomic: GAAGGTGCACTTCGTCGCATTATTCTAACTGCATCAGGTGGTGCTTTCAGgcaagtccat ... atcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAA
EST:
gi|211496438|gb|FL049443.1|FL049443EST: GAAGGTGCACTTCGTCGCATTATTCTAACTGCATCAGGTGGTGCTTTCAG GGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAA
genomic: GAAGGTGCACTTCGTCGCATTATTCTAACTGCATCAGGTGGTGCTTTCAGgcaagtccat ... atcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatatgtacttctggaaagataaaaacccatctcatgtaaattgatcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
aattgat putative branch site (score: 4)
aaagataaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtccatcccttatgtggtatatgtacttctggaaagataaaaacccatctcatgtaaattgatcatgacagGGACTGGCCAGTTGACAGGCTGAAAGATGTAAAAGTTGCTGACGCTTTAAAGCATCCAAACTGGAATATGGGAAGGAAGATCACAGTAGATTCTGCTACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA