Sequence
atgc intronic sequence ATGC exonic sequence...ggtttcagagattttgcatttaaacaaatacttactgttaaatctgcggttgtttatggatttaatgacaattgcatctcttgtttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G04380.1 (Glycine max), 3'ss of exon 4
----------ggtttcagagattttgcatttaaacaaatacttactgttaaatctgcggttgtttatggatttaatgacaattgcatctcttgtttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA------
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gtaccaatccattattaaaaagttttgcctcaaactgctg-ttattgtttattctgc-------tggaggtctattacttattcttcttctt--ttatgtgtccaactagTCGATCTCATGCCATCTTCACGATCACATTAGAGCAAATGCGCAAGCTCAATA------TTCCTGGTGACAGCTGTTCAAATGATACCATGAATGAAGAGTATCTT
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 4
-ggtttcagagattttgcatttaaacaaatacttactgttaaatctgcggttgtttatggatttaatgacaattgcatctcttgt-ttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA------
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agccttcatgg--ttaaaagttgttcataaaaatgctgttcaatttatctttctggagttctcttctattacttattcttcttctactatgtgtccaaccagTCGTTCACATGCTATCTTCACCATCACATTAGAACAAATGCGGAAGCTCAATAGT------CATGGTGAGATCAGTTTAAATGATACAATGAATGAAGAATATCTT
upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G35780.1 (Glycine max), 3'ss of exon 4
-ggtttcagagattttgcatttaaacaaatacttactgttaaatctgcggttgtttatggatttaatgacaattgcatctcttgt-ttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA------
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agccttcaggg--ttaaaagttgttcatcgaaatgttgttacatttatctttctggagttctcttctattacttattcttcttctgttatgtgtccaaccagTCGTTCACATGCTATCTTCACCATCACATTAGAACAAATGCGAAAGCTCAATAGT------CCTGGTGAGATCAGTTTAAATGATACAATGAATGAAGAATATCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcggttgtttatggatttaatgacaattgcatctcttgtttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA
atttaat putative branch site (score: 4)
tttatggatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttcagagattttgcatttaaacaaatacttactgttaaatctgcggttgtttatggatttaatgacaattgcatctcttgtttatgtgaatgtacagTCGCTCGCATGCCATCTTCACCATCACATTAGAGCAAATGAATAAGCTCAATCCTGCTTTTCCTAGTGATAGTGGTCTTAGTGAGAGTATGAGTGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - -ttttgca
- - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - cttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caattgc