Sequence
atgc intronic sequence ATGC exonic sequencegtagctttcttctgccccaggaaatggttctcttatatcgcgctcttggcaatttggcttgctttatggaagtttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g07080.1 (Oryza sativa), 3'ss of exon 4
gtagctttcttctgccccaggaaatggt--tctcttatatcgc-------------gctcttggcaatttggc----------------ttgctttatggaag---------tttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
|||| | | |||||| ||| ||| || | || ||| | | ||| || || | || | |||||| || || |||| | |||||||||||| ||||||||||||||||||||||||||||||||||||||| ||||| ||||| | |||||||||||||||||||||||||||||| || |||||
gtagttattttctgcttcagtaaacagtggtttcctattttgttcagtgcttttgtgctgatgacattctgaccatatttcttcaggctttgcttaataaaatatttcttaccttttccccttttagTTGCAATGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTGGGAACAGGCAATGCCCACATACAAAAACTACCATGCAAAGTAGATGCCTTGCA
upper sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G04300.1 (Glycine max), 3'ss of exon 2
gtagctttcttctgccccaggaa---atggttctcttatatcgcgctcttggcaatt---tggcttgctttatggaagtttttttcat-tttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
||| | ||||| | |||| || || | || | | | | | ||| | | || | || || ||||| |||||| || || || || || |||||||| ||||| |||||||||||||||||||||| || | || || || || ||||||||||||| || | |
gta-tatatttctgtacttggaatgcattgtattgttgtcaccagtacaaagtgattatataggatgacattctgactcttggttcatctttagTGGCTACTGAGGTTTTTAGTTGGGGCAGTGGTGCAAATTATCAGCTTGGAACTGGAAATGCGCATATTCAGAAGTTACCATGCAAAGTTGATTCACTTGG
upper sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G29100.1 (Glycine max), 3'ss of exon 2
--gtagctttcttctgccccaggaaatggttctcttatatcgcgctcttggcaatt---tggcttgctttatggaagtttttttcat-tttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
|| ||||| | | | | || | | | | | ||| | | || | || || ||||| |||||| || || || ||||| |||||||| ||||| ||||||||||||||||||||||| || | || || || || ||||||| ||||| || | |
gtataaatttctgtacttggaatgctttggattgttgtcaccagtacaaagtgattatataggatgacaatttgactcttggttcatctttagTGGCCACTGAGGTCTTTAGTTGGGGCAGTGGTACAAATTATCAGCTTGGAACTGGAAATGCGCATATTCAGAAGTTACCATGTAAAGTTGATTCACTCGG
upper sequence: GRMZM2G135133_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv08s0032g00280.t01 (Vitis vinifera), 3'ss of exon 4
gtagctttcttctgccccaggaaatggttctcttatatcgcgctcttggcaattt---ggcttgctttatggaagtttt--tttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
| | | | || | || | || | | | |||| ||| | || | | | | |||| | || ||||||||| ||||| | || |||||||||||||| || ||||| ||||||||||| ||| ||||||||||| |||||||||||||| || | | ||
---gtggttattgcacttgtcaatttattgaatcatgtggt--tgttggaaatctttagggataacctgagtgacttttcatgtctgtttagTTGCCACGGAGTTATTTAGTTGGGGAAGTGGTGTGAACTATCAACTTGGAACTGGGAACACTCACATACAAAAGCTACCATGCAAAGTTGATTCACTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatatcgcgctcttggcaatttggcttgctttatggaagtttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
tttttttcatttt CT-rich tract
aagtttttttcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagctttcttctgccccaggaaatggttctcttatatcgcgctcttggcaatttggcttgctttatggaagtttttttcattttagTTGCAACGGAAGTCTTCAGTTGGGGAAGTGGGACAAATTATCAGCTTGGAACTGGCAACGTCCACATACAAAAACTACCATGCAAAGTAGAAGCTTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC