Sequence
atgc intronic sequence ATGC exonic sequence...tttcaatcaacagagtgcactctcatgttcttttttagtggtttaagttttaatcatactgttggagcatggctaaatacattctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g40450.1 (Oryza sativa), 3'ss of exon 4
tttcaatcaacagagtgcactctcatgttcttttttag--------tggtttaagttttaatcatactgttggagcatggctaaatacattctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
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gtatatgtgactgcttgctttgctttacacggtgtaaaaagaggattggcacaactgctagccacttccttgttttttaaccaa-------catctttatgtttgcagAAGTTTGATTCTGTGAGTCGTCATGGAATAAGAGATGGTGGACTGGGTTTCTTCAGTGACATTGCTCTGGTCCTTATTGATGAAGTTCATCTCCTCAACG
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G346278_T01 (Zea mays), 3'ss of exon 3
tttcaatcaacagagtgcactctcatgttcttttttagtggtttaagttttaatcatactgttggagcatggctaaatacattctt-----tttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
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--------------gtccatgtcactacttactttgacctgtagaagttaagattagcctgctaacccacttcttgctttctcactggaattgtaatacatgcagAAGTTCGATTCTATGAGTCGACATGGTATAAAAAGTGGTAGATTGGGTTTCTTCTGTGACATTGCTCTTGTCCTTATTGATGAAGTTCACCTTCTAAATG
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G07850.1 (Glycine max), 3'ss of exon 3
tttcaatcaacagagtgcactctcatgttcttttttagtggtttaagt--tttaatcatactgttggagcatggctaaatacatt-ctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
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-gttgttctcctaggc-catgtacacatgcacaagaaataggctgactgatttattgacactatggga-tatagctaactcgatttctttttccaatgaatagAAATTTGATGCAGTGTCACGATATGGTATAGAAAGTGGTGGCTTGAGCTTTTTTAGTGACATATCACTTTTACTAATTGATGAAGTTCATCTATTGAATG
upper sequence: Vv14s0066g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G27730.1 (Arabidopsis thaliana), 3'ss of exon 3
---------------------------------------------------------------------------tttcaatcaacaga-gtgcactctc----atgttcttttttagtggtttaagttttaatcatactgttggagcatggctaaatacattctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
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gttagatatcaaattcactttgttgtctgtatttactgtttggaacttgtttactgcttctgatcccccttatgattctagccagaacacaagcaatatctgctatttcattctgtgtttacacgaactacatgcttgtatctccttagtggatcattgtagtttacatgtttcctgcagAAATTTGATGCAGTAAGCCGTTATCGTGTTACCAGTGGAGGATTAGGTTTCTTCAGCGATATTGCGCTTGTGCTCATTGATGAAGTTCACCTACTGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttaatcatactgttggagcatggctaaatacattctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
ggctaaa putative branch site (score: 3)
tacattctttttcctt CT-rich tract
taaatacattcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcaatcaacagagtgcactctcatgttcttttttagtggtttaagttttaatcatactgttggagcatggctaaatacattctttttcctttctatagAAGTTTGATGCAGTGACCCGGTATCGCATAAAAGATGGAGGCTTGAGTTTTTTCAGTGACATAGCTCTTGTGCTTATTGATGAAGTTCACCTATTGAATG
- - - -caacaga
- - - - - - - - -cactctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - catactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatggc