Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagattctgtttctttttccctactttctatttacatctagtatttctagagctgttttcaacataattggctttattaatgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
Basic information
species | Glycine max |
transcript | GLYMA11G02690.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G41180.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtagattctgtttctttttccctactttctatttacat--ct---agtatttctagagctgttttcaaca-taattggctttattaatgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
|||| || || ||| |||| || | || || || ||| |||| || | | | || || | || | | |||| |||| || |||| ||||| ||| |||| ||||||||||| ||||| || |||||||||||||||||||| |||| || |||| |||
---gttagaaactcttaaaaattctaagatttcaatacaaataactgaaagagcttccagagatgaaaaaattactgataaactgtttt--tctacagATTCTGAAATGCTGAAGGATGTTTCAAGATATACAAGACAAGAGCTAGAAGTAGCATGTGAAGACTTCAGCAACATCATTGATTCTAGTGCAGAGAGTCA
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G63430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtagattctgtttctttttccctactttctatt-tacatctagtatttctagagctgttttcaacataat-tggctttatta-atgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
|||| ||| || || ||| ||| ||| | | || | | | | ||| | || |||||| | | |||| |||| || |||| ||||| || | | ||||||||||| ||||| || ||||||||||| |||||||| ||||| | ||| ||||||||
---gttagaatct-ttcctaattctttaccttccaatgtagaatccatggagcaaagaactaaaaaaacgtggcatgtttttattttaactacagATTCTGAAATGCTGAAGGATGTTTCGAGATTAACAAGACAAGAGCTCGAAGTGGCGTGTGAAGACTTTAGCAACATCATTGGTTTATCAGCAGATAGTCA
upper sequence: GLYMA11G02690.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g03700.t01 (Vitis vinifera), 3'ss of exon 8
gtatgtagattctgtttctttttccctactttctatttacatctagtatttctagagctgttt--tcaacataattggc--------tttattaatgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
||| | | |||| || | | | | |||| || | ||| || | | ||| | | || |||| || ||| || | ||||| ||||| ||||||| ||||| || | ||||| |||||||||||||| || |||||||| |||||||||||||| || ||||||||||||||| |
----gtaaaat-tgttactcaa-cagtccgccccatttgcactttatatctcagaaaccttttctttagtattgatggcagtgttctttcattgat-tacagACTCTGAGATGTTGAAGGATGTATTTAGATTCAGCAGGCAAGAGCTTGAAGTAGCATGTGAAGATTTCAGCAACATAATAGGCTCCTCACCAGATAGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatctagtatttctagagctgttttcaacataattggctttattaatgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
tattaat putative branch site (score: 2)
ctttatt CT-rich tract
ttttcaacataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagattctgtttctttttccctactttctatttacatctagtatttctagagctgttttcaacataattggctttattaatgtgcagACCCTGAGTTGTTGAAAGATGTGAGAAGGTATAGCAGACAAGAGCTTGAAGTTGCCTGTGAAGACTTCAGCAACATAATTGGGTCCTCACCAGATAGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA