Sequence
atgc intronic sequence ATGC exonic sequencegtatttgatttaaaagtccatcggtttgtcatttctatatgtaaactaccaatcgggtgcagtagaaaaatctttctttgcatgttcattggtaaattaatatgctatcttttgtatttttgtggtttttgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 15
gtatttgatttaaaagtccatcggtttgtcatttctatatgtaaactaccaatcgggtgcagtagaaaaatctttctttgcatgttcattggtaaattaat-atgctatcttttgtatttttgtggtttt-tgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
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-------------------------------------------------gtatcctctttcacaaaacagtctatctttttgaacatttttggatgccatttgttttttaatcactattccaatggatgaatgcagGCTCTTGCTAAACTCATAACAGTTTGTGGTCCCTATCATCGAATGACAGCTGGAGCTTATAGTCTGCTAGCTGTTGTATTGTATCACACTGGTGATTTTA
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 17
gtatttgatttaaaagtccatcggtttgtcatttctatatgtaaactaccaatcgggtgcagtagaaaaatctttctttgcatgttcattggtaaatta--atatgctatcttttgtatttttgtggtttttgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
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gtatctacgtccagaaccctttgtttggaaatcttca------aagtgtcgacaaggttt--ttcaacagtctacacct-----ttcatttcagaattgtcgtttgatatctgctataattcgttggtg---acagGCTCTTGCTAAGCTGGTAGCAGTTTGTGGTCCCTATCATCGGATGACAGCGGGAGCCTACAGCCTCCTTGCTGTAGTTTTATATCATACTGGAGACTTCA
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 17
gtatttgatttaaaagtccatcggtttgtcatttctatatgtaaactaccaatcgggtgcagtagaaaaatctttctttgcatgttcattggtaaattaatatgctatcttttgtatttttgtggtttttgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
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gtatctacatccagaaccctttgtttggaaatcttcaaattgtggacaaggtttttcaacagtcaacacat--ttcatttcagaattgttg---------tgtgatatctgctataattcgttggtg---acagGCTCTTGCTAAGCTGGTAGCAGTTTGTGGTCCCTATCATCGGATGACAGCGGGAGCCTACAGCCTCCTTGCTGTAGTTTTATATCATACTGGAGATTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgttcattggtaaattaatatgctatcttttgtatttttgtggtttttgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
aattaat putative branch site (score: 3)
tttttgc putative PPT
taaattaatatgctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttgatttaaaagtccatcggtttgtcatttctatatgtaaactaccaatcgggtgcagtagaaaaatctttctttgcatgttcattggtaaattaatatgctatcttttgtatttttgtggtttttgcagGCTCTGGCAAAGCTGGTCGCAGTTTGTGGTCCCTACCATCGAATGGCAGCAGGAGCTTACAGCCTCCTTGCTGTAGTTTTGTATCATACAGGGAACTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT