Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G09190.1 (Glycine max), 3'ss of exon 2
-------------------------gtttgtc-acttacacattttatgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
||| | ||| | | | ||||| || ||| | | | | | | | || ||| ||||||| || || ||||| |||||| ||| ||| || || ||||||||||| ||||||||||||||||||||||| ||
gtatggtgttggttagtgtgttgatatttatttggttaaagagtgtatgatttatgcatattggatttgt-cgttattgacgtattgctctattgattgtagGTAGCCTTAAAATTTGAGCATAGAAGCAGCAAGGGGTGCAATTATGGACCTCCATATGAGTGGCAGGTTTACAA
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G09070.1 (Glycine max), 3'ss of exon 2
----------------------gtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggta----attttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
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gtatggtgttagttagggtgttgattgatatttggttaaagagtgtgtttgactgatgcatattggatatgtcattggtacgtattgttctattgattgtagATAGCCTTAAAATTTGAGCATAGAAGCAGCAAAGGGTGCAATTATGGACCCCCACATGAGTGGCAGGTTTACAA
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G09080.1 (Glycine max), 3'ss of exon 2
------------------gtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggta-attttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
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gtatggtgttagcgtgttgatatttggttaaagagtgtgtttgattgatgcatattggatttgtcattattgacgtattgctctattgattgtagGTAGCCTTAAAATTTGAGCATAGAAGCAGCAAAGGGTGCAATTATGGACCTCCATATGAGTGGCAGGTTTACAA
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 3'ss of exon 2
---------------gtttgt----cacttacacattttatgaattt--gatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
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gtgtaacatttatgactttgtggtacaatcactcaatgtggtgatctatgctgggttttatcttgttaatatgttttctgatcttcatgaattttagGTTGCCTTAAAATTTGAGCATAGAAGCAGCAAAGGGTGCAATTATGGACCACCATATGAGTGGCAAGTTTACAA
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------------------------gtttgtca-----cttacacattttatgaatttgatggatttgttccttacataaatcca----ttaaatggtaattttttgt--agGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
||||| | | || ||| || | | || || || | |||| | | | || | | | ||||| ||| || ||||| || |||||||| | ||||| || ||||||||||| ||||| ||||||||||||||||| |
gtattcaatttcttacaatttgttctgctctacttctttcgcagcagcatgtttggaagatactctgcatattgcatcgaggtcttgtgatttttaatgtaataagttttgtattcatattgaactcgtttgtgcagGTTGCGTTGAAGTTCGAGCATCGGAGTAGTAAGGGCTGCAATTATGGTCCTCCTTATGAGTGGCAGGTTTACAC
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ38433 (Selaginella moellendorffii), 3'ss of exon 2
gtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
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gtagactgttcgaagatttgctcagttggattggctcttttct--cagcggctgatcaaa----gatgttgt-cagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC
upper sequence: GRMZM2G355274_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ31718 (Selaginella moellendorffii), 3'ss of exon 2
gtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
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gtagactgttcgaagattttctcagttggattgctcttttctcagcg---gctgatcaaa----gatgttgt-cagGTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
tccttac putative branch site (score: 2)
ttttttgt putative PPT
attaaatggtaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcacttacacattttatgaatttgatggatttgttccttacataaatccattaaatggtaattttttgtagGACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG