Sequence
atgc intronic sequence ATGC exonic sequence...tttttccatgtggttagtgatatagttttcttcattcacttatacatgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
Basic information
species | Glycine max |
transcript | GLYMA08G01730.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G055561_T01 (Zea mays), 3'ss of exon 4
-tttttccatgtggttagt--gatatagttttcttcattcacttatacatgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
|||| ||| | | ||| | ||| ||| | | || | | || | ||| | | | || | | ||| || | ||||| || ||||| | ||||| | ||| | | | |||| ||| |||| ||||||| ||||| || |||||||| |||||||| |||||||||||||| |
tcttttttgtgtatatgattggattttatttgcttgccccgaaagtgcaaattttctaaga--catggtcaaacaatcaatctggcct-tttgatttgtgcagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGCTGTTGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACA
upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 3
lower sequence: AT1G63500.1 (Arabidopsis thaliana), 3'ss of exon 2
tttttccatgtggttagtgatatagttttcttcattca--cttatacatgctgt-tcaatattcattattagcttgttaaagaaacttctttccttcctt-cagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
|| ||| ||| || | ||| | | | | | ||| | ||| || | || | || ||||| || || ||||||| |||| ||||||||||| ||||||| | ||| || |||||| ||||||||||||| |||||||||||| || | |||||||| || | ||
---------------------gtaatttgcttaataaagtctttacctttttatgttaatttggattcttggattttgaatctctggtctttgtttttttatagGAGGAAGCTAAAGCTGTTGGTCAATTAAGGAATTATAGAATGGCAAATCTTCTTGGATGTTGTTATGAAGGTGAAGAGAGACTTCTTGTTGCTGAGTTTA
upper sequence: GLYMA08G01730.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
---tttttccatgtggttagtgatatagttttcttcat-tcacttatacatgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
| ||| ||| || || | | || || || | | | | | | || || | | | ||| | | || ||| | | || |||| || || || ||||||| ||||| | || || |||||| |||| ||||||| ||||||| |||||| || || ||||||||||| ||||||| ||
ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatctt----gatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
cttctttccttccttc CT-rich tract
ttcaatattcattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttccatgtggttagtgatatagttttcttcattcacttatacatgctgttcaatattcattattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTAGGGCTGTTGGTCAGCTAAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA