Sequence
atgc intronic sequence ATGC exonic sequencegtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttgacgatgacgaccactgacgacggcgcgcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062318_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g10600.1 (Oryza sativa), 3'ss of exon 8
gtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttga--cgatgacgaccactgacgacggcgcgcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
| |||| | || | | | | | | || | | || ||| | |||| ||| | | | | || || |||||| |||| |||| |||||||||||||||||| || |||||||||||| |||||||||| ||| ||||||||||||||||||||||||||||||||||||
-------------------------ccctctccatgatcgcatctccaaaccttaaacctcgaaatgccatgctgcggcgagtttaatgcgattacg-tcgttaatggcgtcgtctcgatctgcagGGCTTGAATGCGAGCCAGAACAGCATGCTGATACTGCAGGAGAGCTGCACGGACGCGTCGGGGTCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
upper sequence: GRMZM2G062318_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 9
gtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttgacgatgacgaccactgacgacggcgc--gcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
|| || || | ||| || || ||| | ||| | || || | || | | | | | | || | | | ||| | ||| | | || |||| |||||||||||||||||||||||| | |||| | || || | || |||||||||| || | || | || ||
--------------------taaatgacaatctgtgattaatttaa-gcctactct-tgttgtccctttttttt----tgtttccaatgcaatcaatttcaaattacaatctctacttcttgatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
upper sequence: GRMZM2G062318_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 9
gtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttgacg-atgacgaccac--tgacgacggcgcg-cgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
|| | | |||||| | | | | || | || || | ||| || | | | || || | | | | || ||| | ||| | | || |||| |||||||||||||||||||||||| | |||| | || || | || |||||||||| || | || | || ||
---------------------------ctctaatttaagccttaaactgtctccctttgttttgtt-ttcaatgcaatcaatttcaacttacaatctctaccttgttgtccacttaatttcttcatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggattatgacggttttgacgatgacgaccactgacgacggcgcgcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
cactgac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttgacgatgacgaccactgacgacggcgcgcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG