Sequence
atgc intronic sequence ATGC exonic sequence...gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaattgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
Basic information
species | Glycine max |
transcript | GLYMA16G26360.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 8
---------gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaattgtttcttca--gGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
| | | ||| | | | | | | ||| | | ||| || | | | | | ||||| || | || | | ||| | | | || || ||||||| ||||| |||||||||||||||||||||||||||||||||||| |||||||
gtatcgctctgttatacatgtattcatctaaccatcctaagtaatgtaacatttttaaatcttctggcttggcacactgaatactttcttgtttcgattgtaaattaaaagGAAATCAAGCACAGAAGCCAAGCCGGATCGAGGAATATTTGTAAAGCATTTCAAGAACATTCCAATGGCTGATATGGAATTAGTTCTG
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 8
--------------------gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaattgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
|| || || ||| ||| | || | | | | || | | ||| | ||| | || | || | | | | |||| || | | || | || || ||||||| ||||| |||||||||||||| || ||||||||||| |||||||| ||||||
gtaactttgaccctttgatattttgtttagccaatctccacattca---tgaaggatcctaattttagaagtgctgatgtagtacaatt--ggttccttccgatgattgtatatgtgcagGAGGGCAGGTACTAAGACTAAGCCTGATCGAGGAATATTTGTAAAGCATTTCAAGAATATCCCAATGGCTGACATGGAAATTGTTCTT
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G011136_T01 (Zea mays), 3'ss of exon 8
----gttcg-tgtaagtaatgcttgga-ttgggattaaataagtatgctgtagaaa--atccgtga-gtaattgtattctactgaagtctaaggaaattgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
||| ||| | |||| || ||| | | | | ||| | | || | ||| | | || |||| | ||| | || | ||| | | |||| ||| | | || | || || | ||||| ||||| ||||| |||||||| || ||||||||||| |||||||| ||||||
gtagattcaatgttctgattgctcaaccttcaaattcatgatggactctggtgttattattcttgatgcagttatattat-ctg--gcctgattg---tgtatgtacagGAGGGCTGGTACAAAGACTGAACCTGATCGGGGAATATTTGTAAAGCACTTCAAGAATATCCCAATGGCTGACATGGAAATTGTTCTT
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
--gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaat---tgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
|| || || | || | || | || | ||| || || ||| | | | || ||||| | || || | | ||||| || | | ||||| ||| ||||||| | ||||||||||||||| ||||||||||||||||||||||||||||| ||
aaattaccaaggtccttgtctgaagtgctctccgatc--ttagcatttaaaacaccatggagaat---aattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaaaatccgtgagtaattgtattctactgaagtctaaggaaattgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
ttgtttcttc CT-rich tract
taattgtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtgtaagtaatgcttggattgggattaaataagtatgctgtagaaaatccgtgagtaattgtattctactgaagtctaaggaaattgtttcttcagGCCAGCTAGCTCCAATTCAAAAAAAGAAAGAGGAATTTTTGTGAAGCATTTCAAGAACATTCCAATGGCTGATATGGAAATAGTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - tgcttgg
- - - - - - - - - - - - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - gaaaatc