Sequence
atgc intronic sequence ATGC exonic sequence...aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcattgtttgatgttgaaaatatgaaattgtactgaagttgatatggttggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G026311_T02 (Zea mays), 3'ss of exon 2
-aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcattgtttgatgttgaaaatatgaaattgtactgaagttgatatggt--tggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
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tgatatggccttattaagtcaccgaaaagcgcaaag-attaaatggcagtgcgctctgattctgtttggtaatgttac--atgttcatattgtgctattgcagAGTGACATCCGTAAAAACCCAGTATTCAGACAGCAGTTCCATGAGATGTGCGCAAAAGTCGGAGTAGATCCATTGGCATCTAATAAAGGAGTCTGGGCAG
upper sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G42650.1 (Glycine max), 3'ss of exon 1
aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcatt----gtttgatgttgaaaatatgaaattgtactgaagttgatatggttggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
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--ggtgttggccttataatgaaatcccactttagttatcactttttttttggcaattcatgattaaattaaaagattctaac--agttgatattgcctgttcagAATGACATCCGCAAGAACCCTTCATTCAGATCACAGTTTCATGAGATGTGTGCTAAAGTTGGAGTAGACCCCTTGGCCTCAAACAAGGGTTTCTGGTCAG
upper sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G11630.1 (Glycine max), 3'ss of exon 1
aatacaattgcttttact-tataaaaaaaaaaaaatcatgatatttcattgtttgatgttgaaaat---atgaaattgtactga-agttgatatggttggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG-
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------gttggccttataatggaatcctactttaattatcacttttgtatttttgcaattaatgattaaattaaaatacactaacggttggtattacctgttcagaATGACATCCGCAAGAATCCTGCATTCAGATCACAGTTTCATGAAATGTGTGCTAAAGTTGGAGTAGACCCCTTGGCCTCAAACAAGGGTTTCTGGTCAGA
upper sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G27040.3 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------------aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcattgtt-tgatgttgaaaatatgaaattgtactgaagt----tgatatggttggt-gcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
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gtcgttatttgttgattcttttttatattttgttgttgttgtgtttgctgttgttttgtcatcgtcttgatttcgtaataagaacatgtagtttaataacattttcctgaatttgataaaattgtggtgaaaagaggcataattttttctttggttgcagAATGACATTCGTAAGAATCCTGCCTTCAGGGCTCAGTTCCATGAAATGTGTGCTAACATTGGTGTGGATCCTCTTGCTTCTAACAAGGGTTTCTGGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattgtttgatgttgaaaatatgaaattgtactgaagttgatatggttggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
agttgat putative branch site (score: 5)
ttgaaaatatgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatacaattgcttttacttataaaaaaaaaaaaatcatgatatttcattgtttgatgttgaaaatatgaaattgtactgaagttgatatggttggtgcagAATGACATTCGCAAGAACCCTGCTTTCAGATCACAGTTCCATGAGATGTGTGCTAAAGTAGGAGTAGACCCCTTGGCATCGAATAAGGGATTTTGGGCAG
aatacaa
- - - - - - - - - - taaaaaa
- - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaata