Sequence
atgc intronic sequence ATGC exonic sequence...accttgcacacacctcatattactaaaaatgagctaagctcattggttgtttcttgcagctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G02040.1 (Glycine max), 3'ss of exon 5
-accttgcacacacctcatattactaaaaatgagctaagctcattggttgtttcttgcagctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
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tagtcaatatataccattcaggattcctggccatctctgtcttttacaagtttatcatgttcatgttcgtgt-tatgtctcatgtgaatccaaaattgcagCCTTTATTTCGCAAGATTGCTGCAGCCTTGCCAGGGATGGAAACACTTTCTTCTACAAAACAGGAAGACATGGTTGATGTAAATTTAAAACCCACCGTGA
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G31200.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------accttgcacacacctcatatt---actaaaaatgagcta----agctcattggttgtttcttgcagctc-tgataacctctgttt--tcaatgtaa------aatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
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gtgaaaattagtgaattctgcattcatcccaatatttttatttattagagcaatctcctatatgatgcccgtgaccatg-atatatcagattttcaaattgatgatctgctattgtggtttctcaacttcatcttccttcacatgttggctcttgtgtacttaatgctttctgtcaatccaaattgcagCCTTTGTTTCGTAAGATTGCTGCTGCCTTGCCAGGGATGGAAACTCTTTCTTCTACAAAGCAGGAAGACATGGTCGATGTAAATTTAAAACCCACGGTGA
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G38110.1 (Glycine max), 3'ss of exon 5
-accttgcacacacctcatattactaaaaatgagctaagctcattggttgtttcttgcagctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
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tattgatcattcatctcttacaagtttatctttcatattttttgcatttgtataagtttatcatgttcgtgt-tatgtcttatgtgaatccaaaactgcagCCTTTATTTCGCAAGATTGCTGCAGCCTTGCCAGGGATGGAAACACTTTCTTCTACAAAACAGGAAGACATGGTTGATGTAAATTTAAAACCCACCGTGA
upper sequence: Vv00s0665g00040.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G14390.1 (Glycine max), 3'ss of exon 5
--------------accttgcacacacctcatattactaaaaatgagctaagctcattggttgtttcttgc-agctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
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gtgaaaattagtgaattctgcatccatcccaaattgatggtcgtttctcaacttcatcttccttcacatgttggttcttgtgtctaattttttctgtc---aatgcaaattgcagCCTTTGTTTCGTAAGATTGCTGCTGCCTTGCCAGGGATGGAATCTCTTTCTTCTACAAAGCAGGAAGACATGGTCGATGTAAATTTAAAACCCACGGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtttcttgcagctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
tgataac putative branch site (score: 2)
ttttcaatgtaaaatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accttgcacacacctcatattactaaaaatgagctaagctcattggttgtttcttgcagctctgataacctctgttttcaatgtaaaatcaaaattgcagCCTCTATTCCGGAAGATTGCTTCTGCTTTGCCAGGAATGGAAACCCTTTCCTCCACAAAACAGGAAGACATGGTCGACGTGAACCTGAAGCCCAGTGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- cttgcac
- - - - - cacctca
- - - - - - - - - - - -taaaaat
- - - - - - - - - - - - - - - - - - - - - -tggttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - cagctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgtaaaa