Sequence
atgc intronic sequence ATGC exonic sequence...ttcaactgttcaacatcaatatttaatgctttttagttcaactattattgctcttgtaactagtgaatcataactctcttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
Basic information
species | Glycine max |
transcript | GLYMA16G29250.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G29250.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0050g01840.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------ttcaactgttcaacatcaatatttaatgctttttagttcaactattattgctcttgtaactagtgaatcataactct--cttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
|||| | || | | || | | | || | || || || ||| || | | | | | || | | | || ||| ||| || ||| | |||| |||||||| |||| ||| || |||||| |||||||||| |||||||||||| || || | | ||||| || ||||| |||
gtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGAGAGATGATCCTGAAGACTCTCTTGGCTAAAGAACAAGCCGAGGATCTTGACTTTAAGGAGCTTGCA
upper sequence: GLYMA16G29250.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 13
-----ttcaactgttcaacatcaatatttaatgctttttagttcaactattattgctcttgtaactagtgaatcataactctcttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
| | | || ||||| | ||||| | | | | | ||| | ||||| || || | | | || ||| ||| || ||| | |||| |||||||| |||| |||||| ||||||||||||||||| |||| ||||||||| || | | ||||| || ||||| |||
atcttctgtgttatcaaatcaaaatatcagaaatgttttaagtagataagcgt-gtcactgtgcttc---aatca-gacaaactaatggtctatatgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGGGAGATGATCTTGAAGACTCTCCTGGCAAAAGAAAAAGCAGAGGATCTTGACTTTAAGGAGCTTGCA
upper sequence: GLYMA16G29250.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0050g01830.t01 (Vitis vinifera), 3'ss of exon 11
----------------------------------ttcaactgttcaacatcaat--atttaatgctttttagttcaactattattgctcttgtaactagtgaat----cataactct-------------cttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
|| | ||| || || | | ||| || | | || | | | | ||||| || | || || | | | || ||| ||| || ||| | |||| |||||||| |||| |||||| ||||| ||||||||||| ||||| ||||||||| || | | ||||| || ||||| |||
gtagatttgcatattgtgtcacactcggcatcattttcatcgttttaccgcatttaaactaaagccgtgttgtatggagaaggatatattgaagatagatgaatgtgtcaccatgcttcgagtaggcaaactaatggtatctgtgatgaacagAATTATGGTTGGTCTACCATCTGTGGAGAGCAGGGAGATGATATTGAAGACTCTCTTGGCAAAAGAAAAAGCAGAGGATCTTGACTTTAAGGAGCTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgctcttgtaactagtgaatcataactctcttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
ctctcttaccttttta CT-rich tract
tttttattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcaactgttcaacatcaatatttaatgctttttagttcaactattattgctcttgtaactagtgaatcataactctcttacctttttattgttgagcagGATCTTGGGTTGTCTTCCATCTGTTGAGAACAGGGAAATGATCTTGAAGACTCTTTTGGCTAAAGAAAAACATGAAAACTTAGACTTCAAAGAGCTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- caactgt
- - - - - caacatc
- - - - - - - - - - - ttaatgc