Sequence
atgc intronic sequence ATGC exonic sequencegtctgctcgcttgctgcgctcgtgtgttcttatatctgtaattggttggcacctgtgttgctgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G039683_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 3'ss of exon 2
--------------------------------------gtctgctcg--cttgctgcgctcgtgtgttcttat-atctgtaattggttggcacc----tgtgttg-ctgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
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gtgctcttcccgtctgtgtttgtgcttgtagtctttatttctttttagttttgctgaatatttctggtcaaaagaacttttgttgctgatcactgaagtatgctgtctgaaacttttgtgcaccatggattctatt-aatgtaacaagcaatttatttctagGAAGGGATTGCTTTTGTTTGATGCCAACTGGAGGTGGAAAATCAATGTGCTATCAGATTCCTGCTCTAGTGAAGTCAGGCATTGTTCTTGTTATCTCACC
upper sequence: GRMZM2G039683_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G08180.1 (Glycine max), 3'ss of exon 1
gtctgctcgcttgctgcgctcgtgtgttcttatatctgtaattggttggcacctgtgttgctgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
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------cagtttggtttgtttgttt-ttttcacacccctagcatgtggtaatttaagttt----gatttttcca-----ttgattgtggctctttatttttattttttggctgcagGGAAAGATTGTTTTTGTCTTATGCCAACTGGAGGAGGCAAGTCGATGTGTTATCAGATCCCTGCATTGGCAAAAGCAGGCATTGTGCTTGTCGTTTGCCC
upper sequence: GRMZM2G039683_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv11s0016g00850.t01 (Vitis vinifera), 3'ss of exon 1
gtctgctcgcttgctgcgctcgtgtgttcttatatctgtaattggttggcacctgtgttgctgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
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---------cagtcagaaagagtgtagagttatgttggcgatcctttgtatggaatttttttaaacagtgatt------tgggttctgttgatta-gtgctaattttcttgtgcagGAAGAGATTGTTTTTGTCTCATGCCAACAGGAGGAGGAAAGTCAATGTGTTATCAGATTCCTGCACTGGCAAAACCAGGGATTGTGCTCGTGGTTTGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
gtttaat putative branch site (score: 4)
ttttgtttaatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgctcgcttgctgcgctcgtgtgttcttatatctgtaattggttggcacctgtgttgctgagatgttttcaacgtatgggttttgtttaatatgttatacaatttatgtgcagGGAGAGATTGCTTTTGTTTGATGCCAACTGGTGGTGGAAAGTCCATGTGCTATCAGATTCCAGCTCTGGTGAAAACAGGCATTGTTCTTGTCATTTCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC