Sequence
atgc intronic sequence ATGC exonic sequence...aattattttcttaataatcctttaatctagtagtcatcttgaaaaaatgagttattgcattagttttatcttctaactagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
Basic information
species | Glycine max |
transcript | GLYMA02G46350.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g57350.1 (Oryza sativa), 3'ss of exon 10
---------aattattttcttaataatcc-tttaatctagtagtcatcttgaaaaaatgagttat-tgcattagttttatcttctaactagcaaaagatactgata-tacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
| | | ||| || ||| | | | | | | ||| | || | | || |||| | | | | | || | ||||||||| ||||||| ||| || | |||||||| || |||| || |||||||||||||||| |||||| | || ||||||| ||||||||| | ||||
gtaggttctatatggagatgtgtcaatttgctttgcctaacttttgtttgttctacctaacatatctccactgatcttcacttcccaatgatacatcctctcactactgcagTCTGGACCTGATGAAAGATGCATCCCTGGAAACACAATTGCCGTGCAAGCAGACATGCCATATAGTGGCTTGTCATCTTTTGGGACAGCATTTCTATCAA
upper sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 10
lower sequence: AT3G20290.2 (Arabidopsis thaliana), 3'ss of exon 10
aattattttcttaataatcctttaatctagta-gtcatcttgaaaaaatgagttat---tgcattagttttatcttctaactagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
|| ||| | ||| |||| | | | | | || || | | | || | || | |||||| | || | || | |||||||||| ||||||| |||||| |||| || || || || || || |||||||| |||||||| |||||||||||||||||||| || || ||||||||||
catattttaagtgtcaattatttagttgacaatggtagctagattacttcatttgcacctctcttgaaggtgacttctatatgttcaatg----tgtttcacagTCTGGACCTGATGAAAGAAGCATTCCGGGGAACACAGTAGCAGTTCAAGCAGATATGCCATTCAGTGGTCTTACAACTTTTGGGACTGCCTTTTTGTCAA
upper sequence: GLYMA02G46350.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0090g01130.t01 (Vitis vinifera), 3'ss of exon 10
-aattattttcttaataatcctttaatctagtagtcatcttgaaaaaatgagttattgcattagttttatcttcta-actagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
|| ||| ||| || | || | | | || | || | | | || || |||| || ||| ||| | || | || ||||||||||||| ||||||| ||||| |||||||||| || ||||||| |||||||||||||| | |||||||| ||||||||||| || ||||||||||| |
ggcttttttactttttagt--ttgatttttttaaatttttttctctgtccatctttcccaatatttttttcatcttcactcactaatcctgcttttatacagTCTGGACCTGATGAAAGAAGTATTCCTGGAAACACAATTGCTGTTCAAGCAGACATGCCTTACAGTGGTCTGACAACTTTTGGAACGGCATTTTTGTCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgagttattgcattagttttatcttctaactagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
attagttttatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattattttcttaataatcctttaatctagtagtcatcttgaaaaaatgagttattgcattagttttatcttctaactagcaaaagatactgatatacagTCTGGATCTGATGAGAGAAGCGTTCCTGGAAATACTGTTGCTGTCCAAGCAGACATGCCATTTAGTGGTCTTACAACTTTTGGCACAGCATTTTTGTCAA
- - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaagata