Sequence
atgc intronic sequence ATGC exonic sequencegtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 8
gta--agccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
||| || |||| | | | || | | | || | | | || | || | | || | | | || | ||||| || |||||||| || ||||| ||| | || || ||||||||||||||||| ||||| ||||||||||| || || ||||| || ||||| | ||||
gtaacagatttgatatccatattctcaatt--gatagatcatgttggttttccttgta-tgatttgtgtaacatgt-tacact-tgaagGTTCTTCGTCCATTTCTGCTTCGGAGGCTTAAATCTGATGTTGAGAAAGGTTTACCACCAAAAAAGGAAACTATACTTAAAGTTGGAATGTCTGAGATGC
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagccttgaagcttct-ttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgatta-agGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
| | || || | || ||| | | || || | || | ||| | | || ||| || || || || |||| || || ||||| || |||||||| | |||||||||||||||||||||||||||||||| ||||| ||||| || ||||| || ||||| || ||||
----gtatggatgcacccattccttgcattgagtttattctgttctg-tgtga-gtcgtag-gttaattgctttcatgtatctttttagGTTCTTCGACCATTTCTTCTTCGAAGACTAAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAGAAGGAGACCATACTTAAAGTTGGTATGTCTCAGATGC
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 8
gtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataat--aatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
|||| || ||| | ||| ||||| ||||| | || || | || || | |||| |||| | | | || | || |||||||||| || ||||||||||| || |||||||||||||||||||||| ||||| || ||||||||||| || || |||||||||||||| ||| |||
gtaaaccc--aagacctcctaattttttagc-tctacctt-atttcatctcatttactgaaatggtttctgtatttctgttt--tttagGTCCTCCGGCCTTTCCTCCTTCGGAGACTGAAGTCAGATGTTGAGAAAGGCTTGCCTCCAAAAAAGGAAACAATACTTAAAGTAGGCATGTCTCAATTGC
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
lower sequence: EFJ32950 (Selaginella moellendorffii), 3'ss of exon 7
gtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaa--gGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
| ||| | | ||| || || | ||| |||||| | ||| | || || ||||| | ||||||||||||||||||||||| || || |||| || || |||||||| || ||||| || |||||||| ||||||
------------------------------------gtatgaatgagcgctatgcgctatcgtc----gatgctgataatgatttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATCCTCAAGGTTGGCATGTCAAAAATGC
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
gtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
| ||| | | ||| || || | || || | |||| | || || ||||| | ||||||||||||||||||||||| || || |||| || || |||||||| |||||||| || |||||||| ||||||
------------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatg-attttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
tgtgataaaatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA