Sequence
atgc intronic sequence ATGC exonic sequence...tttgaagcattggaaagtgtgctttggcttctgaggataattttatcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
Basic information
species | Glycine max |
transcript | GLYMA16G00950.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G00950.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g07940.1 (Oryza sativa), 3'ss of exon 4
------------------------tttgaagcattggaaagtgtgctttg-gcttctgaggataattttatcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
|| || || | | | | | | ||| || || | ||| | | || | | | | || | || |||||| ||||| ||||| || || || |||| |||||| || || || ||||||||||| |||||||||||||||||||||||||| ||
gtaagatatcactactctcattggttctaaaagttcgcatgcaacttaggagtttccactagtagaattgtgaacattgttctttcctgcttactgcttcctggttgtgccatggctgtttgaagGTGGCTATGACAAGGAGGAGAAGGCTGCAAGGGCTTATGATTTGGCAGCACTCAAGTACTGGGGTCCAACAACTCACATAAATTTTCCA
upper sequence: GLYMA16G00950.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g01370.t01 (Vitis vinifera), 3'ss of exon 4
-------------tttgaagcattggaaagtgtgctttggcttctgaggataattttatcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
| |||| | || || |||| | || | || | | || | || |||| | | |||||| || | | || | || |||||| ||||||||||||||||||||||| | |||||| || ||||| ||||||||||||||||||||||| ||||||||||||||||||
atgttaattctcttctgaaattgtaagaaa-aagcattggatggtgtgcatctctctttcattcttt--------ttaattatttgttgt--taatgtatttgct--catcagGTGGGTATGATAAGGAAGAAAAAGCAGCTAGGGCTTATGATTTAGCGGCACTCAAGTATTGGGGTCCAACCACTCACATAAATTTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
aaataattaaatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgaagcattggaaagtgtgctttggcttctgaggataattttatcgcttttggcaaataattaaatttgtgttgtattattattattattattattagGTGGTTATGATAAGGAAGAAAAAGCAGCAAAGGCTTACGACTTAGCTGCACTCAAGTATTGGGGTCCAACAACTCACATAAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - gtgtgct
- - - - - - - - - - - - tggcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgta