Sequence
atgc intronic sequence ATGC exonic sequence...ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g12540.1 (Oryza sativa), 3'ss of exon 4
ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttga---catgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
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ttgtaggattattctgctgttacatcattctcttgttagttctttgttt---ccaattattcagcgcatttgataacggttttttcaccccatgacttgttagGTTGGTCCAGAATATGCAAGGTACTGCGGGATTGAGGCTCTAGAACCCTTGGGATTATATCTTCCGGGAGACATAAACTACCCGGGAGGAGCACTCTTCG
upper sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G38220.1 (Glycine max), 3'ss of exon 5
-ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
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aaataatcgaagctgcttgactacacgacttgttcttttgggacagttattgacg-tctgcaaatggataacctttatactaattagagattcttaaacagGTTGGACCTGAATATGCTAGATATTGTGGGATCGAGGCATTGGAGCCTCTTGGAATATATCTGCCTGGTGATATAAATTATCCTGGAGGAGCTTTGTTTG
upper sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0122g00430.t01 (Vitis vinifera), 3'ss of exon 5
---ttttaagaatattccattgc-cgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
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tacttgtgtaaataggttggaccacacatggaagacctgtggttttttttttttt-tggtacaaattttg--ttctg-aaacctcttgttacttgtgtaaatagGTTGGACCAGAATATGCAAGATATTGTGGGATTGAAGCTTTGGAGCCTCTGGGAATTTACCTGCCTGGTGATATTAATTATCCAGGAGGAGCTCTTTTTG
upper sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ22688 (Selaginella moellendorffii), 3'ss of exon 4
ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgta-aaactatcttgacatgatttgt-cagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
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----------------------------------gtaaatcgtcctttttc-tcgtcaagttcttccaatcgatacaaactaatct---atgatccaaacagGTTGGTCCAGAGTATGCCAGGTACTGCGGCATCGAAGCACTAGAACCGCTAGGAATCTATCTTCCCGGAGACATCAACTATCCGGGAGGAGTCCTGTTTG
upper sequence: GRMZM2G131489_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ13067 (Selaginella moellendorffii), 3'ss of exon 4
ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgt-cagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
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-------------------------------gtaaatcgtcctttttctagtcaagttc--ttctaatcgatataaactaatct----atgatccaaacagGTTGGTCCAGAGTATGCCAGGTACTGCGGCATCGAAGCACTAGAACCGCTAGGAATCTATCTTCCCGGAGACATCAACTATCCGGGAGGAGTCCTGTTTGMapped 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|4609481|gb|AI600320.1|AI600320EST: CTGGTGGTCAAGGCGTCGTTGTAATTGCAATCTGCCAAGCCCTCTTGATG GTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTG
genomic: CTGGTGGTCAAGGCGTCGTTGTAATTGCAATCTGCCAAGCCCTCTTGATGgtaatactgt ... gatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
tcttgac putative branch site (score: 3)
atgatttaagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttaagaatattccattgccgcatggtccccttgttattccttttcttagatgatttaagtattgcactctgtaaaactatcttgacatgatttgtcagGTTGGACCAGAATATGCAAGGTATTGTGGGATCGAGGCACTAGAACCATTGGGAATATATCTTCCTGGTGACATAAACTACCCAGGAGGACCCCTTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA