Sequence
atgc intronic sequence ATGC exonic sequencegtataacaaatatctgtctctagcttcttcttttcaattagtactactggtatgaataaccttgttttccaccccacctagtgagaaaagggttggttgttgttgtttttgtataaatatttctttctttcttcattggttgttgttttcattagGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
Basic information
species | Glycine max |
transcript | GLYMA05G30320.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 7
gtataacaaatatctgtctctagcttcttcttttcaattagtactactggtatgaataaccttgttttccaccccacctagtgagaaaagggttggttgttgttgtttttgtataaatatttctttctttcttcattggt----tgttgttttcatt---agGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
| |||| | || |||| || ||| || || |||| | | |||||||| |||| |||||| ||||||||||||||||||| || |||||| | | |||||||||||||||||| ||||||| || ||||||||||||||||||| ||||
--------------------------------------------------------------------------------------gtacggtttcccagtcttattttcctagtttctttttatttttgggaaggtggtatgttaatattttcattttcagGTGCGCTTTATGGTCATGGGAAATATGTTTTGTACAGAATTACGAATTCACCGTCGTTATGATTTGAAGGGTTCATCTCAAGGAAGATATACAGATAAAG
upper sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ34272 (Selaginella moellendorffii), 3'ss of exon 4
gtataacaaatatctgtctctagcttcttcttttcaattagtactactggtatgaataaccttgttttccaccccacctagtgagaaaagggttggttgttgttgtttt-tgtataaatatttctttctttcttcattggttgttgttttcattagGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
||| ||| | | ||||| | | ||| || ||| | ||||||| ||||| || |||||||| |||||||||||||| |||| ||| ||||| | | ||| |||||||||| | | || | | || || || |
-----------------------------------------------------------------------------------------------gtttgagttactcggtccttaaatgcgattacagtctaacatg------tgcttttac-agGTTCGTTTTGTAGTAATGGGAAACATGTTCTGCACAGACCTTCGTATACACCGGAGGTTCGATTTGAAGGGGTCGTCACTGGGGCGGTCGACGGAAAATG
upper sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ31327 (Selaginella moellendorffii), 3'ss of exon 4
gtataacaaatatctgtctctagcttcttcttttcaattagtactactggtatgaataaccttgttttccaccccacctagtgagaaaagggttggttgttgttgtttttgtataaatatttctttctttcttcattggttgttgttttcattagGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
||| | || || || | ||| | ||| | | || ||| | ||||||| ||||| || |||||||| |||||||||||||| |||| ||| ||||| | | ||| |||||||||| | | || | | || || || |
--------------------------------------------------------------------------------------------------gtt-tggtccttaaatgca-attacagtctaacatg---------tgcttttac-agGTTCGTTTTGTAGTAATGGGAAACATGTTCTGCACAGACCTTCGTATACACCGGAGGTTCGATTTGAAGGGGTCGTCGCTGGGGCGGTCGACGGAAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgtttttgtataaatatttctttctttcttcattggttgttgttttcattagGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
ttgttttc CT-rich tract
tttttgtataaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataacaaatatctgtctctagcttcttcttttcaattagtactactggtatgaataaccttgttttccaccccacctagtgagaaaagggttggttgttgttgtttttgtataaatatttctttctttcttcattggttgttgttttcattagGTTCGCTTTGTGGTCATGGGAAATATGTTCTGCACAGAACTTCATATTCACCGTCGTTATGATCTGAAGGGGTCTACTCAAGGAAGATATACAGACAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA