Sequence
atgc intronic sequence ATGC exonic sequence...tttgtttctttttggtggaatacatatataagttctgatgatgaaggtatatatatgcacacataaatatatataatataattataatacatatgtgtagGTGCACCGTCTGATAGAGGAGTGTATCCTATTCAACATGAGCAAAGAAGAGTGCATGGAAGCTCTTTCCAAACATGCAAATATCAAGCCTGTTATTACCT
Basic information
species | Glycine max |
transcript | GLYMA19G35810.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35810.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G02580.2 (Arabidopsis thaliana), 3'ss of exon 1
--------------------tttgtttctttttggtggaatacatatataagttctgatgatgaaggtatatatatgcacaca-taaatatatataatataattataatacatatgtgt-------agGTGCACCGTCTGATAGAGGAGTGTATCCTATTCAACATGAGCAAAGAAGAGTGCATGGAAGCTCTTTCCAAACATGCAAATATCAAGCCTGTTATTACCT
||| ||| |||| || | | || |||||| ||| | |||| | ||| | || || |||| || || || ||| | | ||||||| | | ||||||| || ||||| ||||||||||| ||||||||||||| ||||| ||||| | ||| ||||| ||||| |||||| | || || |
gtacgactttatcaaactctttttttttttttccgtttcttgtcaaatcaatctctgatcttgatcg-atattttatcacttaaccgatgctgatcatatcataatcatgtgtatatattggttgcagGTGCATCATTTGATAGAAGAATGTATAGTATTCAACATGGGCAAAGAAGAGTGTATGGATGCTCTGTTCAAGCATGCTAATATTAAGCCTATCATCACTT
upper sequence: GLYMA19G35810.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0040g02650.t01 (Vitis vinifera), 3'ss of exon 1
---tttgtttctttttggtggaatacatatataagttctgatgatgaaggtatatatatgcacacataaatatatataatataattataatacatatgt--gtagGTGCACCGTCTGATAGAGGAGTGTATCCTATTCAACATGAGCAAAGAAGAGTGCATGGAAGCTCTTTCCAAACATGCAAATATCAAGCCTGTTATTACCT
| || | | | | || | | | || ||| | | ||| | | || | | ||| | || | || ||| | ||||||| || |||||||||||||| ||| | ||||| ||||||| |||||| ||||||||||| || ||||||||||| | ||||| || || || || |
gtgagcatacctctctcttattccagatcttttcatataactggcctgggttt-tgaatgtagtcgatgcgatgaagattatgaatacacatgatttgtaagcagGTGCAACGCCTGATAGAGGAGTGCATCATCTTCAATATGAGCAGAGAAGAATGCATGGAAGCCCTCTCCAAACATGCTGACATCAAACCAGTCATCACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtatatatatgcacacataaatatatataatataattataatacatatgtgtagGTGCACCGTCTGATAGAGGAGTGTATCCTATTCAACATGAGCAAAGAAGAGTGCATGGAAGCTCTTTCCAAACATGCAAATATCAAGCCTGTTATTACCT
atatatgcacacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtttctttttggtggaatacatatataagttctgatgatgaaggtatatatatgcacacataaatatatataatataattataatacatatgtgtagGTGCACCGTCTGATAGAGGAGTGTATCCTATTCAACATGAGCAAAGAAGAGTGCATGGAAGCTCTTTCCAAACATGCAAATATCAAGCCTGTTATTACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - tggtgga
- - - - - - - - - - - - - - - - - - gatgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacacat