Sequence
atgc intronic sequence ATGC exonic sequence...tgaagattcattagagtttgctttatataattagatgcaaaatgcctgttgaactttctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0181g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os07g37610.1 (Oryza sativa), 3'ss of exon 4
-----------------tgaagattcattag-agtttgctttatataat-tagatgca-----aaatgc------ctgttgaac-------tttctatttacaatttagcatcctataga------ccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
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gtatccaaaaaattctatgtatcttcatcagcaatttcctctagataatatagatttactagtaaatactgtcatttttttcacgtgtttttttttgtttaaactcttgcctgttcttaagtgtttccttaaccctccaacagCTCAAATTCTGTTATTACCCCTTTGTTTGAGAAAATGTTAAGTGCTAGTGATGCTGGACGGATTGGTCGTTTGGTGTTGCCAAAGAAATGTGCTGAG
upper sequence: Vv00s0181g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G008356_T01 (Zea mays), 3'ss of exon 4
-----------------------------tgaagattcattagagtttgctttatataatta-gatgcaaaatgcctgttga---actttctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
| | || | | || |||| | || | | || | || | | || | | ||| | | || | || |||||| | |||||||||||||| || |||||||||||||||||||||||||||||||||||||||||||| || || |||||||| ||||||| || |||||||||
gtatccgacacattctacttatgttaataagtaattttccttggcattactttctgtagtcataattcccaacttccatagatatgttattcgtttgaactctattgagtttta---cttaactttcaaacagTTCAAATTCTGTTATTACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGGATTGGTCGTTTAGTTTTGCCAAAGAAGTGTGCTGAG
upper sequence: Vv00s0181g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G07350.1 (Glycine max), 3'ss of exon 6
-------tgaagattcat-----tagagtttgctt-tatataatta----gatgcaaaatgcctgttga-actttctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
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gtatccttcaaatcacatgatcgtagtgctggtttatatataactattttattgcacttcattttccaagaatgtctaatgccatactggaagctacaatatcttaactatatcccagTTCAAATTCTGTAATTACTCCCTTGTTTCAGAAAACCTTGAGTGCTAGTGATGCTGGGCGAATTGGGCGTTTAGTGCTACCCAAGAAGTGTGCTGAG
upper sequence: Vv00s0181g00260.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G31970.1 (Glycine max), 3'ss of exon 5
------------tgaagattcattagagtttgctt-tatataatta----gatgcaaaatgcctgttgaactt-tctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
| || ||| ||| | || ||||||| || |||| | | | | |||| | || | | | | | |||||||| | | ||||||||||||||||| ||||| |||||| | || | | |||||||||||||||||||| || |||||||||||||| || || || |||||||||
gtatccttcaaatcaaatgattgtagtgttggtttatatataactattttattgcacttcgttttccaattatgtctaatgccatactggaagctacaataccttaactttatcccagTTCAAATTCTGTAATTACTCCCTTGTTTCAGAAAACTTTGAGTGCTAGTGATGCTGGGCGAATTGGGCGTTTAGTGCTACCCAAGAAGTGTGCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgttgaactttctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
gaccttaac putative branch site
tttctatttacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaagattcattagagtttgctttatataattagatgcaaaatgcctgttgaactttctatttacaatttagcatcctatagaccttaaccatgtgtaagTTCAAATTCTGTAATCACTCCTTTGTTTGAAAAGATGCTAAGTGCTAGTGATGCTGGGCGTATAGGGCGTTTAGTGCTGCCAAAAAAATGTGCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - -aaatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttaac