Sequence
atgc intronic sequence ATGC exonic sequence...aggaaagaaaaagtagaggctgccacattgtggaaaggggggaaaaagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g02230.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G004356_T01 (Zea mays), 3'ss of exon 4
-----aggaaagaaaaagtagaggctgcca--cattgtggaaaggggggaaaaagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
||| |||| | || |||| || || || || ||||| ||| | || || | | | || || | ||| | | ||||| |||||||| |||||||| ||||| || | ||||||||||||||| | ||||||||||||||
tgattttgaattaaaagatccagagtgccgttcaccatgtaa----ggttaaaagatgacaaagagaaacttctgatatta-tgtttcattttta--aactatgcagACAGATAGAGCAGCTATGCTAGATGAGATCCTAGATTATGTGAAGTTTCTGAGGCTTCAAGTCAAG
upper sequence: Vv14s0030g02230.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G36770.1 (Glycine max), 3'ss of exon 4
aggaaagaaaaagtagaggctgccacattgtggaaaggggggaa---aaagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
| ||| |||||| | | | |||| | || | | ||| | | | ||| || | | |||| || |||| |||| || |||||||| |||||||||||||||||||| ||||||||||| | ||||||| || |||
-acatagagaaagtaaaatttacggttttgtaggttatggattatctactgttaaaatatccattctttttgtgct--taatattatgaaattgtggttgtagACGGACAGAGCGGCGATGCTTGATGAAATTGTGGACTATGTGAAGTTCCTTAGGCTTCAGGTTAAG
upper sequence: Vv14s0030g02230.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G30430.2 (Glycine max), 3'ss of exon 4
-aggaaagaaaaagtagaggctgccacattgtggaaaggggggaaaaagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
||||| ||| || | | | | | | | ||| | | | | | || | |||| || |||| |||| || |||||||| ||||||||||||||||| || ||||||||||| || |||| || || |||
agagaaagtaaatatacggcttaatttgtaggtaatggatcatctactgttaaaaaatgtgcattcttttgtgc-ttaatattatgaaattgtggttgtagACGGACAGAGCGGCGATGCTTGATGAAATTGTTGACTATGTGAAGTTCCTAAGGCTCCAGGTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
tactgat putative branch site (score: 2)
tattttaatctgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggaaagaaaaagtagaggctgccacattgtggaaaggggggaaaaagttgagtattttaatctgttaaaaatactgatatattgctgttgtttgcacagACTGATAGAGCGGCTATGCTTGATGAAATTGTGGATTATGTGAAGTTTTTACGGCTTCAAGTCAAG
- - aagaaaa
- - - - - - - - - - -gccacat
- - - - - - - - - - - - - - - -ggaaaggg
- - - - - - - - - - - - - - - - - - - - ggaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt