Sequence
atgc intronic sequence ATGC exonic sequencegtagagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
Basic information
species | Glycine max |
transcript | GLYMA03G02610.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g14260.1 (Oryza sativa), 3'ss of exon 8
gta-gagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtggatttttttctcctcctctacttattgctcatagacctgat----ttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
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gtatggaatctttacttgcacccatgtaccttgatttttacatgtagattgttctggtttgtttcattccttatctctgagtattgattatttgctacatatttttcagGTCTTTGCAACAGCTTCATATGATGACCATAAAAATATTGTACTCCTGGCGTTTGAAATTATCGAGAAGATTTTGCGGGAGTACTTTCCCTACATTACTG
upper sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 8
gtagagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtgg-atttttttctcctcctctacttattgctcatagacctg---atttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
||| | || | | | || | | | ||| | | | || ||| || | | | || || | | | | |||||||| || | |||| | |||||||| |||||||| |||||||| ||||| ||||||||||| || |||||| | || || |||||||||||||| ||||
----gtatgacac-cttcactcatgtaccataactcttatctaaag---acctctgcaacattcttgttttcagtcctgaacatggattgccggtttacatctttcagGTCTTTGCGACAGCGTCATATGATGATCACAAAAATATTGTACTATTGGCCTTTGAAATTATAGAAAAGATTTTGCGGGAATACTTTCCATACATTACTG
upper sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
gtagagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
| ||| | | ||| ||| | | || || |||||| | ||| | | | | || ||||| || || |||| || ||||| ||||||||||| ||||| | ||| | ||||||||||| ||||||||||||||||| || || |||||||||||||
----------------gtaggcatttattgtaattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttct----tccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
upper sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------------------gtagagctgataaactcctattg--tctatagagagcttcaattaatgctaatgtttg-tggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
| | ||| | | | || ||| | | || || | || | | |||| || || | | | | | ||| || ||| | |||||||| |||||| |||||||||||||||| || |||||||| |||||| |||| |||||||| || ||||||||| | ||||| ||||| || ||||| ||||
gtattgaaatctgtccaatctgtagttttctattaaagaatatgcaagtgagggagtgattttagttcttcaatttgatttcatcattgattttatttggtgaatggctatgttaacagattattaatgtgaata---tttttttcagGTCTTCACAACAGCAGCTTATGATGATCATAAAAACATAGTACTCCTGGCCTTTGAAATAATTGAGAAGATTGTGCGAGACTACTTCCCCTACATTACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttgtggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
atttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA