Sequence
atgc intronic sequence ATGC exonic sequencegtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 3'ss of exon 7
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgc--atgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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gtatgagctatattttccaattgaaaatcaagttcttgatatctgcacatatatgtca--------------gacgtgtctg-ggataattgacttgatttccattcaaacaattgtagGAGGTTGCTTCGTGGAGGGTGAATGGTTAAGAAACGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g03730.2 (Oryza sativa), 3'ss of exon 7
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagatt-gcatg-atgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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gtatgagctatattttcccattgaaaatcaagttcttgat------atgtacat-atatgcca---------gacatgtctg-ggataattgacttgatttacattcaaacaattgtagGAGGTTGCTTTGTGGAGGGGGAATGGTTAAGGAACGCATTCAGGTGGAGGGAATCTATTGGTCCATGGGAAGAGAGGCCTGGACACTTTGGGGATGTTTG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G30450.1 (Glycine max), 3'ss of exon 7
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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gtaagcatagtttgacaataat-gcattctagttcactcttctagtttgtatgcaactca---------actaa--catctgggagtg-----ttatttttcattacattgcattagGCGGTTGTTTTGTTGAAGGAGAATGGTTAAGAAATGCATTTCGATGGAAAACATCCATTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G00630.1 (Glycine max), 3'ss of exon 6
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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--------tgtgtatccataca-agttttgtgaatttagttatgcaa-atattaaatagtttctcttagacctactaattttatgttgaaactttggcatgcattat-------tagGTGGGTGTTATGTTGAAGGAGATTATTTAAGAAATGCATTTAGGTGGAAAGACACAGTTGGACCATGGGAAGAGAGACCAGGACACTATGGAGATGTATG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G27460.3 (Glycine max), 3'ss of exon 7
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgta-tatgatatattgcaatatat-taatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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--------------gtttgagtaagcatcat-ttgataataacgtgttctagtttactcttctagtttgtatgtaactcaactaacatctaggaatgttattttacattgc----atagGCGGTTGTTTTGTTGAAGGAGAATGGTTAAGAAATGCATTTCGATGGAAAGCATCTGTTGGACCATGGGAGGAGAGACCTGGGCACTTTGGTGATGTTTG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G27490.1 (Glycine max), 3'ss of exon 6
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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--atgatccatcttttttcc-----aatttcttcctcgaatttg---tctttatgtcatcaagcgttcaaataa--cttccaaatttaatgcaatttttt-----atctttcaagagGTGGCTGTTTTGTTGAAGGACAAACATTAAGAAATGCATTTCGGTGGAAAGATAGTGTTGGACCCTGGGAAGAGAGACCTGGTCACTTTGGTGATGTTTG
upper sequence: GRMZM2G077299_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv08s0040g00320.t01 (Vitis vinifera), 3'ss of exon 8
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattg--tagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
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--------------catccattcataat--attttctggttccatgacttcttccgaaggctcaggcat-ttggtcgaattaat--tcagataatatgttctctatttatattgcatagGTGGCTGTTTCGTTGAAGGTGATTGGTTAAGAAATGCATTTCGCTGGAAACAGACAATTGGGCCCTGGGAGGAGAGACCTGGACACTTTGGTGATGTTTGMapped 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|71441725|gb|DR822775.1|DR822775EST: ACTTATATCCATGATTTTGGATTTAAAACCACGATTCTTGAGATTTCCTG GAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAG
genomic: ACTTATATCCATGATTTTGGATTTAAAACCACGATTCTTGAGATTTCCTGgtatgctccg ... gctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
tattaat putative branch site (score: 2)
atattaatacatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctccgtgttttcttatttagaatcaggttcccaatgctaagatgtatatgatatattgcaatatattaatacatttaaggataatggactagattgcatgatgctattgtagGAGGCTGCTTTGTAGAAGGTGGCTGGTTAAGAAATGCCTTTAGGTGGAGAGAATCTATTGGTCCATGGGAAGAGAGACCTGGACACTTCGGGGATGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA