Sequence
atgc intronic sequence ATGC exonic sequencegtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
Basic information
species | Glycine max |
transcript | GLYMA15G07110.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 3'ss of exon 3
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaat-tcattcaaatacaacattatcat-gttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
| ||| | | | | | | || | | | | || ||| | | | | || | | ||| |||| | ||||||||||| |||||||| ||||||||||||| ||| |||||||||||||||||| ||||||||| ||||| |||||||| | |||||||
-------------------------------------------------gtaaattttcagtaatggataatgactattcagacaatatgtcacttctgtggggtactgagatcgcttaaattgaacagGTATTGTGTATGCTTGCATGTTGGGTTAAAGATCCAAATGGGGATTATTTCAAGAAGCATCTTGCTAGGATCCCATATTATATATGGGTTACAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 3'ss of exon 7
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatg-ttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
||||| | | | | || | | | | | | || | || ||| | || ||| | ||| ||||| | ||||||||| | |||||||| ||||||||||| || ||| |||||||||||| ||||| ||||| ||||||||| |||||||| |||||||
--------------------------------------------gtaattt---ttctgcaatggataatgtctattcagacagtatatctcttctt-tggggtgctaatatggcttaaattgaatagGTGTTGTGTATGCTTTCATGTTGGGTTGAAGATCCAAACGGGGATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01140.t01 (Vitis vinifera), 3'ss of exon 3
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
|| || || || | || | || | | ||| | || ||| || | | || | ||| |||| | |||||||||||||||||||||||||||||| |||| ||| ||||||||||||| ||||| ||| |||| |||||| ||||| | | |||||||
--------------------------------------------gtaacacgattgtccgtgttatgagatgttt--aaaaggaaaaagaaactctaatcgaagaatgtct--cttaaattgagcagGTATTGTGTATGCTTGCTTGTTGGGTAGAAGATCCATATGGGGATTCTTTCAAGAAGCACCTTGCTAGGCTCCCGGATTATATATGGATGGCAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 3'ss of exon 7
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatg-ttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
|| | | | | || || | | || | | | | ||| || | | | ||| | || ||| | |||||||| | |||||||| |||||||||||||| ||| |||||||||||| ||||| ||||||||||||| | |||||||| | |||||||
------------------------------------------------gtttttttctgcagtggataacttctatttagacaatatgtcagttctt-taggatactgatatggcttaagttgaacagGCATTGTGTATGCTCACATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTTTATATGGGTTGCAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 3'ss of exon 5
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
| | ||| | | || || | | ||| | | | | || || | |||| | ||| |||| | |||||||| | |||||||| |||||||||||||| ||| |||||||||||| ||||| ||||||||||||||| |||||||| | |||||||
-----------------------------------------gtattt-tttcagtaatggataa--tgactattcagacaatatgtcactccttttggggtactgatatcc--cttaaattgaacagGTATTGTGTATGCTCTCATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTATATATGGGTTGCAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 3'ss of exon 7
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatg-ttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
||||| | | | | || | | | | | | || | || || | | || ||| | ||| |||| || ||||||||| | |||||||| ||||||||||| || || |||||||||||| ||||| ||||| ||||||||| |||||||| |||||||
--------------------------------------------gtaattt---ttctgcaatggataatgtctgttcagacagtatat-cacttctttggggtgctaatatggcttaaattgaacagGTACTGTGTATGCTTTCATGTTGGGTTGAAGATCCAAACGGGAATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 3'ss of exon 7
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
| | ||| | | || || | | | || | | | | ||| || ||| | || | | ||| |||| | |||||||| || |||||||| |||||||||||||| ||| |||||||||||| ||||| ||||||||||||||| |||||||| | |||||||
-----------------------------------------gtattt-tttcagtaatggataatg-actattcagacaatatgtcacttctttggggtac----tgatatcgcttaaattgaacagGTATTGTGTATGCTCGCATGTTGGGTTGAAGATCCAAATGGGGATTATTTCAAGAAGCACCTTGCTAGGATCCCAGATTATATATGGGTTGCAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 3'ss of exon 11
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatg-ttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
| | | | | | || | | | | | | || | || || | | || ||| | ||| |||| | ||||||||| | |||||||| ||||||||| | || ||| |||||||||||| ||||| ||||| ||||||||| |||||||| |||||||
-----------------------------------------------gtattttttctgcaatggataatgtctgttcagacagtatat-cacttctttggggtgctaatatggcttaaattgaacagGTATTGTGTATGCTTTCATGTTGGGTTGAAGATCCAGACGGGGATTATTTCAAGAAGCACCTTGCTAGGATTCCAGATTATATATGGGTTGGAGAAGATG
upper sequence: GLYMA15G07110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0054g01210.t01 (Vitis vinifera), 3'ss of exon 7
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
| | | || | || || || ||| | || || ||| | || ||| ||| |||| | |||||| ||||||||||||||||||||||| |||| ||| ||||||||||||| ||||| ||| | ||||||||| ||||| || | |||||||
-----------------------------------------------------gtaacacgattgtccgtattatgaaatgtttaaaagaaactctaacg-aactctttc---ttca-attgagcagGTATTGTGTATGTTTGCTTGTTGGGTAGAAGATCCATATGGGGATTCTTTCAAGAAGCACCTTGCTAGGCTGCCAGATTATATATGGATTGCAGAAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
cattttct CT-rich tract
aaattcattcaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtcatcataatattaaaatatatattactttctagcatgcaccaatttgaatgataaattttttagtttttctctataaaggaaattcattcaaatacaacattatcatgttcgcattttctagGTTCTATGTATGCTTGCTTGTTGGGTAGAAGATCCAAATGGAGATGCTTTCAAGAAGCATCTTGCAAGGATCCCAGATTATTTATGGGTTTCTGAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG