Sequence
atgc intronic sequence ATGC exonic sequencegttggaaatgttgtatctgagctgataagtgaatcatcatttcagaatttcatttgcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
Basic information
species | Glycine max |
transcript | GLYMA10G27810.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 6
------gttggaaatgttgtatctgagctgataagtgaatcatcatttcagaatttcatttgcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
||| || |||| ||| | || ||| | | | || ||| | | || |||| || || | | | ||| | ||||| || ||||| ||||| |||||||| ||||| || || |||||| ||| || || ||||| |||||||| |||||||| |||| ||||||||||| |
accattgtttagcattttgtttcttaa-tggtaaatctcccctttattttcaatattttctg--tttgttgttttctaagggaactgattcatt--ctgtggcagTTTCCGAAACTATGTGGCATGACTGGAACTGCTGCTACGGAAAGCCAAGAGTTCGAAAGCATATACAAACTAAAAGTTACCGTTGTTCCAACAAACAAGC
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 7
gttggaaatgttgtatctgagctgataagtgaatcatcatttcagaatttcatttgcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
| || || || || | || || ||| ||| |||| | | | || | || |||| | |||| || |||||||| || ||||| || || ||| | || || || |||||||||| ||||| ||||| ||||||||||||||||| || ||||| || |
--------------------gttgg-aaatgcat--actttccactttttgattattgtttgcattgtaatgtataatatcttttatgt-----tgtagTTTCCGAAACTTTGCGGGATGACGGGTACAGCATCGACCGAGAGTGCAGAATTTGAAAGCATATACAAGCTTAAAGTTACAATTGTACCCACAAATAAGC
upper sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 8
gttggaa-atgttgtatctgagctgataa-gtgaatcatcatttcagaatttcattt-gcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
||||||| || || | || | | || |||| ||| || | | || | || ||| | ||| | || | | || || | ||||| || || |||||||| ||||||||||| |||||||| ||| ||||||||||| ||||||| ||||| |||||||||||||||||||| ||||||||||
gttggaacatcttatttcccaaatcatttcatgaagcatgtttggatatttactttccatcttctagctt--tctagtgttaatttctattcactgttgcagTTTCCAAAGCTTTGTGGAATGACTGGCACCGCAGCAACTGAAGGCACAGAATTTCAGAGCATATACAAGCTTAAAGTTACAATTGTGCCCACAAACAAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatttcatttgcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
tacctct CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggaaatgttgtatctgagctgataagtgaatcatcatttcagaatttcatttgcctttgaacttaccttgatgctttcaaccatgtacctctacagTTCCCCAAACTTTGTGGTATGACTGGCACTGCAGCAACAGAAAGCACAGAATTTGAGAGCATTTACAAACTTAAAGTTACAATTGTGCCAACAAACAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA