Sequence
atgc intronic sequence ATGC exonic sequence...ctgcataacagcagctttggttttatatttttcataattgtaataaaaaagacttcagacgtttcatgtactacttttgttttcttttattcaatatcagGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
Basic information
species | Glycine max |
transcript | GLYMA09G37610.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 15
ctgcataacagcagctttggttttatatttttcataattgtaataaaaaagacttc----agacgtttcatgtactacttttgttttcttttattcaatatcagGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
|| | | | | | | |||| | |||||| || | | ||| ||| | | || | || || | | | ||| | ||||||||||||||||||| || ||||| || || ||| |||||||||| || ||||| | ||| | || || |||||| |||| ||| ||||||||
--gccttctaaagggt--gctggcatatctgtcataacaaggttataccattcttttacaagaatgctgacatatgataatttttgttatcattgcaacactagGGTGGGCATTTCTCTGGTATTTATAGAAAAGTGCAACTAAAGCCACTGAAATGGATTAGAGTTCCAAAGCGCTGTGGTGATGGTGAAGAGGAACGACCAA
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 16
---------------------------------------ctgcataacagcagctttg--gtt---ttatatttttcataat---tgtaataaaaaagacttcagacgtttca-tgtactacttttgttttcttttatt------caatat---cagGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
||| | | | || | || || |||| || ||| | |||||| | || | ||| || | | | | || | | |||| || || |||||||||||||||||||||||||| |||||||| ||| | ||||| | || ||| | || || | ||||| |||||||||| | ||| ||||| || |
gttgtgtgccttcaaaatcttattttttctttcttttctctgagctatatccatttcgcagtcccattgtattgtttatagtccttgtaattagctgtacagtaacagttacagcctgcaaactcagtctcatgttatagatgtgtaaaatttgcagGGTGGGCATTTCTCTGGCATATACAGGAAGGTTCAACTGAAGCCGTTGAAATGGGTTAACGTACCAAAAAGTGATGGTGAAGGCGAAGAGGAACGCCCAG
upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
ctgcataacagcagctttggttttatatttttcataattgtaataaaaaagacttcagacgtttcatgtactacttttgttttcttt--tattcaatatc-agGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
| | | | | | || | | | | | | ||| | ||| | | | | ||| | || | | || |||| |||| || ||||||||||| || ||| ||||||| ||| ||||||||||||||||| | ||||| | ||||| ||||||||||||| ||||||||| ||||
--atgtgaaaattcaaaagatcctcctcattcctttactaca-tcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaagacttcagacgtttcatgtactacttttgttttcttttattcaatatcagGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
ctacttttgttttctt CT-rich tract
ttttgttttcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcataacagcagctttggttttatatttttcataattgtaataaaaaagacttcagacgtttcatgtactacttttgttttcttttattcaatatcagGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
-tgcataa
- - - - - gcagctt
- - - - - - - - - - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - gacttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgta