Sequence
atgc intronic sequence ATGC exonic sequence...tatctagaatgtatgcactttgtcatcaatgctattaatccaaattcatcaacatttgcattggttattgttctgtaatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
Basic information
species | Glycine max |
transcript | GLYMA03G16440.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G117746_T01 (Zea mays), 3'ss of exon 11
tatctagaatgtatgcactttgtcatcaatgctattaatcca-aattcatcaacatttgcattggttattgttctgtaatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
| | ||| | | ||| | |||| | | ||| | || || | | || | | ||| | || |||||||||||||| ||||||||| ||||||| | ||||||||||| || | | || ||||||| ||||| || || | ||| ||||||||||| || ||
------gtacatattagcacattgatctgtcacattatacaatgattttactgaatgaaactttgctgttaaatttacaaatcagcgaagcatt-ttgtagGTACCAGAGGGTTTTGAAATGTGTGTTCGGCTAATGCTTCCTGGTGAAAAATCTATTGTCACCTGCCCACCAGATTTTGCATATGATAAGTTCCCAAG
upper sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G54010.1 (Arabidopsis thaliana), 3'ss of exon 11
------ta-tctagaatgtatgcactttgtcatcaatgctattaatccaaattcatcaacatttgcattggttattgttctg--taatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
|| || | | ||| | | | || | | || | | || | | | ||| ||| | ||| | | || |||| || || || ||||| ||| || |||||||||||| ||||| ||||| |||||||| |||||||| ||||| ||||| ||||| || ||||||||
gtcagttactccaacgtttataggaaaacctagtggagttctttagacgttttagttgaaatatatctctacgcacggactggttaagattattctgtcgtatttgcagGTCCCTGAAGGGTTTGAGATGTGTACTCGTTTGATGCTACCTGGGGAGATTGCTCTTGTTACATGCCCCCCTGATTATGCATATGACAAATTTCCGAG
upper sequence: GLYMA03G16440.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0007g01460.t01 (Vitis vinifera), 3'ss of exon 12
tatctagaatgtatgc-actttgtcatcaatgctattaatccaaattcatcaacatttgcattggtt--attgttctgtaatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
| || ||| | ||| ||| | | | | | | |||| | ||| | | | ||| | || | || | ||| || ||||| || ||||| | |||||| |||||||| | ||||| || || |||||||||||||| ||||| ||||||||||| || |||||||||||||| ||
--tataagccaattgctagtttcccataactacgttataattttttctttcaatgatggcaattgcttaattaatgtgagaggctgttct-tttgtgggctagGTGCCTGAGGGGCTGGAAATGTGTGTTCGTCTTATGCTGCCAGGGGAGATAGCTCTTGTAACATGTCCTCCTGACTACGCATATGATAAGTTTCCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcaacatttgcattggttattgttctgtaatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
tctcattttctttctg CT-rich tract
attttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatctagaatgtatgcactttgtcatcaatgctattaatccaaattcatcaacatttgcattggttattgttctgtaatctcattttctttctgttttagGTACCAGAGGGATTTGAAATGAGTGTTCGTTTGATGCTTCCTGGAGAGATAGCTCTTGTCACATGCCCTCCTGACTATGCTTATGATAAGTTTCCGAG
- - - - - gtatgca
- - - - - - - - - - - - - caatgct
- - - - - - - - - - - - - - - - - - -atccaaa
- - - - - - - - - - - - - - - - - - - - - - - catcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgta