Sequence
atgc intronic sequence ATGC exonic sequencegtttgcagtctgaagtattgatgattatgatatattaaattattgattgtattggaacttaagtattaatgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 7
gtttgcagtctgaagtattgatgattatgatatattaaattattgattgtattggaa-cttaagtattaatgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
|| |||| | || | |||| | || ||| | | | || |||| || ||||| || ||| | ||| ||||||||||||||||||||||||||||| |||||||| ||||||||||||||||||||||| |||||||||||||| |||||||||||||| |||||||||||||| |
gtctgcaattagatttgttgacaa--attataaaatgatccat-gattctactggaagctgaagaagaaatatattggcagGTGGTTAATTGTAAGGATGAACTTGCACAATTCTACCTGATGGACTGCATAATACAAGTCTTTCCAGACGAATACCATTTACAGACATTGGAAACATTGT
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 8
--------------gtttgcagtctgaagtattgatgattatgatatattaaattattg-attgtattggaacttaagtattaa---tgtattgg-cagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
||| | | || ||| | | || | ||| ||| | || || || || | | || | || ||| ||||| || |||||||| ||||| ||||| || || || || ||||| ||||||||||| || ||||| ||||| |||||||| || ||| | || || || |
gtctaataaagtacattttctccccaaaatatagttt-ttctcttattgtaacccttgatgttatactgtctctcagctgtttaaattggcttgaacagGTTGTCAATTGTAAAGATGAGCTTGCCCAATTTTATCTTATGGAGTGCATAATCCAGGTTTTTCCCGATGAGTACCATTTGCAGACACTTGAGACTTTGT
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G40270.1 (Glycine max), 3'ss of exon 7
--------------gtttgcagtctgaagtattgatgattatgatatattaaattattg-attgtattggaacttaagtattaa---tgtattg-gcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
||| | | || ||| || || | ||| ||| | || ||||| || | | || | || ||| |||||| || |||||||| ||||| ||||| || || || || ||||| ||||||||||| || ||||||||||| |||||||| || ||| | || || || |
gtctaataaagtacattttctccccaaaatat-aatttttctcttattgtaacccttgatgttatattgtctctcagctgtttaaattggcttgagcagGTTGTCAATTGTAAAGATGAGCTTGCCCAATTTTATCTTATGGAGTGCATAATCCAGGTTTTTCCAGATGAGTACCATTTGCAGACACTTGAGACTTTGT
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G75850.1 (Arabidopsis thaliana), 3'ss of exon 7
gtttgcagtctgaa----gtattgatgattatgatatat----taaattattgatt---gtattggaacttaagtattaatgtattgg-cagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
||| | || | | || || | ||| | | || | | ||| |||| ||| | | || ||| ||||| || || ||||| ||| | | || |||| || |||||||| |||||||| ||||||||||| ||||| |||||||| || || | || || ||||
gttcggcagctcatttttgcatctattaccatgtcctttcttatagggtttcaattcatgtataatctgctaaatctgaaaaccttgaacagGTCGTCAACTGTAAAGATAAGTTGGCTCAGTATTATCTGATGGAGTGCATAATTCAAGTCTTTCCTGATGAGTACCATTTGCAGACTCTTGAGACCTTAT
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT3G51310.1 (Arabidopsis thaliana), 3'ss of exon 7
----gtttgcagtctgaagtattgatgattatgatatattaaattattgattgtat-tgg--aacttaagtatta--atgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
| || ||| || | ||| || || || | | | || | | |||| || | | |||| || |||| || || ||||||||||| |||||||||| |||||| ||||| ||||| || ||||||||||| ||||| | || | ||||| | || |||||
gtctggtttttctctcc-gtttagatagtttcagcat-ccaaccttccgtctacatGTTGTCAACTATTGTCTCACTATGTCTTAAAAGGTTGTCAACTGTAAGGATGAACTTGCACAGTGCTACCTTATGGATTGCATTATTCAAGTCTTTCCTGATGATTTTCACCTTCAAACTCTCGATGTATTAT
upper sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------------------------------------------------gtttg-cagtctgaagtattgatgattatgatatattaaattattg-attgtattggaactta---agtattaatgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
|||| || | ||||| |||| | | | | | | | || |||| | || | ||| | | ||| |||| || |||||||| ||||| |||| || || || ||||||| |||||||| ||||||||||| ||||| ||||| || ||||| | || |||||||
gtctgatctatttagttgtctctcaacagtttttttttttttttttggtcattttcgttttcttcttttatttgtcattttgaaggcgtgatatgtggcttttgcatgacaactataacataatggagcctacatggcattcgtct-ttgatagGTTGTCAATTGTAAAGATGAGATTGCCCAATTTTATTTGATGGATTGCATAATTCAAGTCTTTCCTGATGAGTACCACTTGCAAACTCTTGAGACATTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgatatattaaattattgattgtattggaacttaagtattaatgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
tattaat putative branch site (score: 2)
tatattaaattattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcagtctgaagtattgatgattatgatatattaaattattgattgtattggaacttaagtattaatgtattggcagGTGGTTAATTGTAAGGATGACCTTGCACAGTTCTACCTGATGGACTGCATAATCCAAGTCTTTCCAGATGAATACCATTTACAAACATTGGAAACATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG