Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtgaagtccacgggtcgcaatgtgttatttgttcaatgttcttttcatcgattcaatgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g02380.2 (Oryza sativa), 3'ss of exon 9
--gtaatgtgaagtccacgggtcgcaatgtgttatttgttcaatgttcttttcatcgattcaatgtt-----------gcaggtatggtg--gataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
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gtataataagaaatggacaaaatgccatgt--tatctgtatc-tgttctttttcttggttctttgtttggaaagatagatagatgtggttatgtgggtcgtaatccaagttttgttacttttgatagGTGGGAGCACAAACAGAGACCGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCTACCAAG
upper sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 8
lower sequence: AT1G55490.2 (Arabidopsis thaliana), 3'ss of exon 9
gtaatgtgaagtccacgggtcgcaatgtgttatttgttcaatgttcttttcatcgattcaa---tgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
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---------------------gtaaactaaaaactatttaagtttcctttgtctgattaagatgtgtttcagagatattaagtta----agctcgt-tatg-tattggttaa-agGTTGGAGCACAAACTGAGACAGAACTCAAAGAGAAGAAGTTGAGAGTTGAAGATGCTCTTAATGCAACAAAG
upper sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 8
lower sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 8
gtaatgtgaagtccacg-ggtcgcaatgt-gttatttgttcaatgttcttttcatcgattcaatgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
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gtaatttttttttttcttaaatacaatgtagctgttggttgatagatggaattctgaaagtattgttct--tttctacccactattttaatttttgtgttgcacatt----cagGTCGGAGCACAAACTGAAACAGAACTTAAAGAAAAGAAATTGAGAGTGGAGGATGCCCTTAATGCAACAAAG
upper sequence: GRMZM2G083716_T04 (Zea mays), 3'ss of exon 8
lower sequence: EFJ32217 (Selaginella moellendorffii), 3'ss of exon 8
gtaatgtgaagtccacgggtcgcaatgtgttatttgttcaatgttcttttcatcgattcaatgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
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-------------------------------------------------gtaagacatcgctttttttgccgtttccggaaaaaattcttctgacattgattcgc---gcagGTGGGAGCTCAAACGGAAACCGAGCTGAAAGAGAAGAAGCTTAGAGTGGAGGACGCTCTAAATGCAACAAAGMapped 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|211268071|gb|FL357474.1|FL357474EST: AGCTCAATGAGAGGATAGCGAAGCTTGCTGGTGGTGTTGCTGTCATTCAG GTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAG
genomic: AGCTCAATGAGAGGATAGCGAAGCTTGCTGGCGGTGTTGCTGTCATTCAGgtaatgtgaa ... tgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAG
EST:
gi|120480889|gb|EH211078.1|EH211078EST: AGCTCAATGAGAGGATAGCGAAGCTTGCTGGCGGTGTTGCTGTCATTCAG GTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAG
genomic: AGCTCAATGAGAGGATAGCGAAGCTTGCTGGCGGTGTTGCTGTCATTCAGgtaatgtgaa ... tgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
ggataac putative branch site (score: 3)
ataattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtgaagtccacgggtcgcaatgtgttatttgttcaatgttcttttcatcgattcaatgttgcaggtatggtggataaccataattcatgtatggcgttgcttgacagGTGGGAGCACAAACAGAAACTGAACTAAAAGAGAAGAAGTTGAGAGTTGAGGATGCCCTAAATGCAACTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG