Sequence
atgc intronic sequence ATGC exonic sequence...atgttcttgtgtatgtaccatgtcaatggaactggactcacatccatgtttacttgttttttcgttagttaatataaacgatgcatcctttgtgctgcagAGGAAGAGGATCGTATTATAATTGCAGCCCATTCACATCATGGAAATAAGTGGGCATCAATTGCAAGGCTCCTGCCAGGCAGAACAGACAATGCAATCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g03200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G06870.1 (Glycine max), 3'ss of exon 1
atgttcttgtgtatgtaccatgtcaatggaactg---gactcacatccatgtttacttgttttttcgttagttaata-taaacgatgcatcctttgtg-ctgcagAGGAAGAGGATCGTATTATAATTGCAGCCCATTCACATCATGGAAATAAGTGGGCATCAATTGCAAGGCTCCTGCCAGGCAGAACAGACAATGCAATCAA
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-----atgctatatgttctattatcatttaattgactgattagcagtcattacgaatataatgactgtcaattatcaatatctaatgagaattcaatttctgcagAGGAAGAGGATAGCATCATAGTTTCAGCCCATGCAATCCATGGAAACAAATGGGCAGCAATTGCTAGGCTTCTTCCAGGAAGAACAGATAATGCAATCAA
upper sequence: Vv13s0019g03200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G42030.1 (Glycine max), 3'ss of exon 1
--atgttcttgtgtatgtaccatgtcaatggaactggac-tcacatccatgtttact-tgttttttcgttagttaatataaacgatgcatcctttgtgctgcagAGGAAGAGGATCGTATTATAATTGCAGCCCATTCACATCATGGAAATAAGTGGGCATCAATTGCAAGGCTCCTGCCAGGCAGAACAGACAATGCAATCAA
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taaacttgttgt-catttaat-tgacagattagccggtcattacaaatatcttgactgtcaattatcaatatctaacagtaatga-gaattcaattt-ctgcagAGGAAGAGGATAACATCATAGTTTCAGCCCATGCAATCCATGGAAACAAATGGGCAATAATTGCTAAGCTTCTTCCAGGTAGAACAGATAATGCAATCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttacttgttttttcgttagttaatataaacgatgcatcctttgtgctgcagAGGAAGAGGATCGTATTATAATTGCAGCCCATTCACATCATGGAAATAAGTGGGCATCAATTGCAAGGCTCCTGCCAGGCAGAACAGACAATGCAATCAA
agttaat putative branch site (score: 4)
catccttt putative PPT
ttttttcgttagttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttcttgtgtatgtaccatgtcaatggaactggactcacatccatgtttacttgttttttcgttagttaatataaacgatgcatcctttgtgctgcagAGGAAGAGGATCGTATTATAATTGCAGCCCATTCACATCATGGAAATAAGTGGGCATCAATTGCAAGGCTCCTGCCAGGCAGAACAGACAATGCAATCAA
- - - - gtgtatg
- - - - - - - - -ccatgtc
- - - - - - - - - - - - aatggaa
- - - - - - - - - - - - - - - - - - - -acatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgatgca