Sequence
atgc intronic sequence ATGC exonic sequence...acgtataaccaacttagattatgacaatccaaggatcaaatgcataattatccaaattatattgatttcttacaacgacatggttttgatttttatacagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA
Basic information
species | Glycine max |
transcript | GLYMA08G21540.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G16340.1 (Arabidopsis thaliana), 3'ss of exon 6
acgtataaccaacttagattatgacaatccaaggatcaaatgcataattatccaaattatattgatttcttacaacgacatggttttgatttttata-------cagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA
|| |||| || | | || | | |||| ||| ||| | | | || || | |||| |||| || ||| | |||||||||||| ||||| || ||||| ||| | ||||||||||| ||||| || ||||| || || |||||||| || || || ||||| ||| | || |
--gtttaactttctctgttcatcaaccactcctaatca--tgc-taactccgtgagccgcaag----tcacacgatgacaactttttttttcttaaaacaaaaatagGAGAGATGATAGTAGGACCAACAAAGACATTGTTCATGGATGAGATATCGACAGGTCTAGACAGTTCAACAACGTACCAAATAGTGAAATGCCTTCAAGA
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 7
lower sequence: AT3G16340.2 (Arabidopsis thaliana), 3'ss of exon 6
acgtataaccaacttagattatgacaatccaaggatcaaatgcataattatccaaattatattgatttcttacaacgacatggttttgatttttata-------cagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA---------------
|| |||| || | | || | | |||| ||| ||| | | | || || | |||| |||| || ||| | |||||||||||| ||||| || ||||| ||| | ||||||||||| ||||| || ||||| || || |||||||| || || || ||||| ||| | || |
--gtttaactttctctgttcatcaaccactcctaatca--tgc-taactccgtgagccgcaag----tcacacgatgacaactttttttttcttaaaacaaaaataggagagatgatagtagGACCAACAAAGACATTGTTCATGGATGAGATATCGACAGGTCTAGACAGTTCAACAACGTACCAAATAGTGAAATGCCTTCAAGAGATTGTTCGGTTCAC
upper sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 6
acgtataaccaacttagattatgacaatccaaggatcaaatgcataattatccaaattatattgatttcttacaa---cgacatggttttgattt---ttatacagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA
|| | | | || | ||| || ||| | | |||| | | |||| | | | ||| | | |||||| | || |||||||||||||||| ||||| |||||||| || || ||||| || |||||||| || || || ||||| || || | ||||||||||||||||||||||||
-----tagtctgatgattttgtatggatcaaatgatgata-gcattgcatgatggacaaggttgacctataatgggcctgactttgggctgatttggataatgcagGAGAGATGATTGTTGGGCCTACAAAAACGCTGTTTATGGACGAGATATCAACTGGGCTGGACAGCTCTACTACGTTTCAGATTGTGAAGTGCTTGCAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattatccaaattatattgatttcttacaacgacatggttttgatttttatacagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA
tttttat CT-rich tract
aaattatattgatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgtataaccaacttagattatgacaatccaaggatcaaatgcataattatccaaattatattgatttcttacaacgacatggttttgatttttatacagGAGAGATGATTGTAGGGCCCACAAAAACACTATTCATGGATGAAATATCAACGGGTCTTGATAGCTCAACAACATATCAGATTGTGAAGTGCTTGCAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - -accaact
- - - - - - - - - - - - caatcca
- - - - - - - - - - - - - - - - - - - - tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - -atccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gacatgg