Sequence
atgc intronic sequence ATGC exonic sequence...tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagactttcatccgtgaaaatgttttgtttgttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 11
tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagact-ttcatccgtgaaaatgttttgtttgttcta-attcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
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--cttactccttagaaatggtgatttgcagaaagatacctagctgtttcttcatatcccactaacttctttcagtctcatgtttttttttgtttctatacagATATGAAATTTTCCAGCTCATGGTAAACCTGTATACTGAAAGGTTCATCCAGATGCTAAGACTTCTCAGTGATAGAGCAAATGATATTCCAAATATAAAT
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G579509_T01 (Zea mays), 3'ss of exon 2
tgctcatttgttttgta--catttgtgtgcatctgtgtgttgtgaagactt--tcatccgtgaaaatgttttgtttgttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
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atctgggctatcctagaactagtgatttacata-acattttctgatggtttccttatctttgccaacgtgttaaatattcacattccttatttctg---cgcagATATGAAATTTTCCAGCTCATGGTAAACCTATACACTGAGAGATTCATTCAGATGCTTCGACTTCTCAGTGATAGAGCAAACGATATTCAAAATATAAAC
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 7
tgctcatttgttttgtacatttgtgtgcatctg--tgtgttgtgaagactttc--atccgtgaaaatgttttgtttgttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
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-gcagggctatccttagaactagtgatttgcagaatatttcctgatggttttcttatttttgccagcgtattaaattgtcacattccttgtttctgca---cagGTATGAAATTTTCCAGCTCATGGTAAACCTGTATACTGAGAGATTCATTCAGATGCTTCGACTTCTCAGTGATAGAGCAAACGATATTCAAAATATAAAT
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 13
----------------------------------------------------------------------------------------tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagactttcatccgtgaaaatgttttgtttgttctaattcaatctttcttgatt---gcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
|| || | | || | | || | | ||| ||| || || | || | | ||| | || || | | | ||| ||||||| || |||||||| || ||||||||||| || ||||||||||| ||||||||||| || |||| || ||| | || ||| || | ||||| || |||
gttttctctatattgaatatactacctttttaatcttcacagcttttggactggcttctctatgaaacacatcctaaacccatgcttgagcctatccgagtcaaac-tacacatttcacttaatctaaacaagtgttt-attggtagagggcttctttatgtacatgttttatttgttctaattctggcagATACGAGATATTCCAGCTAATGGTAAATCTGTACACTGAGAGGTTTATTCAGATGCTAAGATTGCTTAGCGACAGGGCGAATGAATTAACAAACATTGAG
upper sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 13
tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagactttcatccgtgaaaatgttttgttt---------------gttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
|||||| || | | | | ||| |||| || || | || | || |||| |||| ||||||| ||| | ||||||| || ||||| || || ||||| || || ||||| ||||| ||||| || ||||| || ||||||||||| ||||||| | |||||||||||||||
-----gtttgttcc-tatctcgttttcctcaagtggacaatgaaagattacagcttaaaatttattctgttccccaagtgaaaaagggttccttagcaatcttctttgctggcagATACGAGATATTTCAGCTTATGGTGAACCTGTATACCGAGAGATTCATACAAATGCTCAGATTGCTCAGTGACAGAGCAAACGATCTGACAAATATAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttcatccgtgaaaatgttttgtttgttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
tctttctt CT-rich tract
aaaatgttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctcatttgttttgtacatttgtgtgcatctgtgtgttgtgaagactttcatccgtgaaaatgttttgtttgttctaattcaatctttcttgattgcagATATGAAATATTCCAACTCATGGTAAATCTTTATACTGAGAGGTTCATTCAGATGCTTAGGCTGCTCAGTGACCGAGCAAATCAACTGACAAATATAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatg