Sequence
atgc intronic sequence ATGC exonic sequencegtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G045171_T01 (Zea mays), 3'ss of exon 3
gtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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gtgaaggaacaccttctcttctccttgt--gccggccggtaccaatcaagtcaaacctgacaaaaaagaaagcaccatcgatgtaa---cagGGGACGATTGCGCATGCTCTCGAGAAGACAAAGTATGAGGATTCCGATGTCAAGTGGAGGGAAATGGACCACAGGTATCATTTCTCATGCCAGTTTACTG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G04990.1 (Glycine max), 3'ss of exon 9
-----------------gtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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gttactaccctattattgaaattttcctattcagtaac---ttttgtggctgtaaggatatccttttttgctgc--ataaattaattccccaggttgcttggaaaccagGGAACTATCGCACATGCTTTAGAGAAGACTAAGTATGAAGATTCAGATGTCAAGTGGAAAGAGTTAGATCCCAAGTATCACTTCTCATGTCAATTCATGG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G33240.1 (Glycine max), 3'ss of exon 8
gtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgcta-gctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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--------------------------------------gtaaggatgtccttgttgctgtataaattaattcctcaggttgcttggaaaccagGGAACTGTTGCACATGCTTTAGAGAAGACTAAGTATGAAGATTCAGATGTCAAGTGGAAAGAATTAGATCCCAAGTATCACTTCTCTTGTCAATTCATGG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G39070.1 (Glycine max), 3'ss of exon 9
----------gtgtttttactcattagtggtagatagttt-gctactaaatataaac-tgtcttcttgctagctacttactaatc---taaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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gtcactataagtttttttaagttttcctttcaactgtttttgtggctgcaagtatatgtgtgtttttgctacgtg--tactaattccatatggtaatttaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 8
----------gtgtttttactcattagtggtagatagttt-gctactaaatataaactgtcttcttgctagctacttactaatc---taaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
| | |||| || | | | ||| | || | || | |||||| || | |||| || || || |||| |||||||||| |||||||| ||||||||||| ||||| ||||| || |||||||| ||||| || || || ||||| || || ||||| || ||||| | |
gtcgctataactttgtttaagttttcctttcaactgtttttgtggctgcaagtata-tgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G37180.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgtttttactcattagt--ggtagatagtttgctactaaatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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gttctttacctttttactttggtaaatttagaccaataaattactcattcttatgtcgaaacaaatttattgaaatgaaagaaaaaaaatctagGCAACTATTGCACATGCCTTGGAGAAGACTAAATATGAAGATTCAGATATCAAGTGGAAAGAGTTTGATCCTAAATATCATTTCTCATCTCAATTTACGG
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S28_394V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------gtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgctagctactta--ctaatcta--aaatgccctg---------aaact----agGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
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gtccgtacatttacttcactcctagatgttgatgaagtccaaagtttaaaccactgataccattgcatttttcaggtattctttattcttgttttcctagtttcagagcctaacttacaaaaaactttactttcgtgaaaactttgcagTGTACAATTGCCCACGCACTGGAGAAAACAAAGTACCCTGACTCAGACATCTACTGGAAGAAGTTTGAGGAAAAGTATCATTTCTCATGCCAATTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
ttactaatctaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtttttactcattagtggtagatagtttgctactaaatataaactgtcttcttgctagctacttactaatctaaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA