Sequence
atgc intronic sequence ATGC exonic sequence...tgttaaaaagaaacaggaagaactaagaaccctgtaatttgaattcttgtttatttgattgaatgatttgctcattaggttctgtacgtttgaattgcagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G31380.1 (Glycine max), 3'ss of exon 4
-----tgttaaaaagaaacaggaagaactaagaaccc--tgtaatttgaattc--ttgtttatttgattgaatgatttgctcattaggttctgtacgtttga------attg-------cagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
| | || | | | | || | | | | || | ||| || || ||| || ||| | || | || ||||| | | ||| |||| |||||||| || || || |||| ||||| |||||||||||||||| ||||||| | ||||||||| ||||||||||| |||| ||||| || || |||| |
gtatatatcaatattcacctatagaaatttatttctcatcgttacttggttttattttcttaattaattataaagattaattccaagattctgaatttctgatgctgtattgttttatgcagCACCGAACTGGTTGCGTTGTTGGTTGCTTGAGAAAATTGCAGAGTTGGTGTCTATCTTCTGTGTTTGAGGAGTACAAGCGATTTGCTGGTGCTAAATATA
upper sequence: Vv04s0023g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G47720.1 (Glycine max), 3'ss of exon 4
tgttaaaaaga------aacaggaagaactaagaaccctgtaatttgaattcttgtttatttgattgaatgatttgctcattaggttctgtacgtttgaattgcagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
|| | | || || | || | || | | | || ||| | | | || | | | || | | ||| ||||||| | ||||| || || || ||||| ||| ||||||| ||||| ||||||||||| |||||| ||||||||||||| || ||||| || || |||||
nnnnnnnnngatatcaaagtgaaagaaatcaaacagccccttatgtatgtcttcattgttttatgtagacattctgacgaatc--tcctcttctttta---tgcaGCATAGAACAGGTTGCCTAGTTGGTTGCTTGCGAAAATTACAGAACTGGTGTTTGTCCTCTGTGTTTGAGGAGTACCAACGATTTGCTGGTGCTAAATCC-
upper sequence: Vv04s0023g00430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G38600.1 (Glycine max), 3'ss of exon 4
--tgttaaaaagaaacaggaagaactaagaaccctgtaatttgaattcttgtttatttgattgaatgatttgctcattaggttctgtacgtttgaattgcagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
| |||||| | | | | | || | |||| || || | ||||| ||| ||| || | | | || ||| | | | ||||||| | ||||| || ||||| ||||| ||| ||||||| ||||| ||||||||||| |||||| |||||||||| || || ||||| || || ||||| |
taaatcaaaaagtgagaaagaaatcaaacagccctttattt--atttcttcattagttgctttatttaaacattctgacaaatctcctcttcttttatgcagCATAGAACAGGTTGCCTTGTTGGTTGCTTGCGAAAATTACAGAACTGGTGTTTGTCCTCTGTGTTTGAGGAGTATCAACGATTTGCTGGTGCTAAATCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtttatttgattgaatgatttgctcattaggttctgtacgtttgaattgcagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
atttgat putative branch site (score: 5)
ttatttgattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttaaaaagaaacaggaagaactaagaaccctgtaatttgaattcttgtttatttgattgaatgatttgctcattaggttctgtacgtttgaattgcagCACCGGACAGGCTGTCTTGTGGGTTGTTTGAGAAAATTGCAGAATTGGTGTTTGTCTTCTGTGGTTGAGGAGTACCAGCGCTTTGCAGGAGCAAAATCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - aaagaaa
- - - - - - - -ggaagaa
- - - - - - - - - - - - aagaacc