Sequence
atgc intronic sequence ATGC exonic sequence...gagtgagtattacattttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
Basic information
species | Glycine max |
transcript | GLYMA12G36520.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 1
gagtgagtattacat----tttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
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--gtaagtcttatttaaggttttagtgaaaaaaggtttcgtttttaagttttgttaagagtga--attttgtttgtt-tgt-gtgtgtttga----------agATTGTAGTTGGTGGAAAGAACAAGTATTTGATCAATGGGAAGCTTGCACAACCAAATCAAGTTCAGAATCTTTTCCATTCGGTGCAGCTTAATGTGAACA
upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 1
-------gagtgagtattacattttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
|| | | | || | | | |||| | | ||| | ||||| | || | ||| | ||| ||| || | |||| | || || ||||||| ||||| || ||||||||||||||||| ||||||||||| ||||| || |||||||||||||| || ||||| || |||||||| ||||| || |
gtatgttctttgtttctcttttgttgtactcatcaattcat-gtgcttgacaaaatttgagacttt--aacttg-gaattgtgt-atcttttggtgttaaaa---agATTGTAGTTGGTGGAAGGAACAAGTATTTGATAAATGGGAAGCTAGCACAACCAAGTCAAGTTCAGAATCTATTTCACTCGGTGCAGCTTAATGTCAACA
upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 1
---gagtgagtattacattttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
|| || | || | || || | || | || || | | | | | ||| | | | |||| | ||| |||||||||||||| || |||||||| || |||| ||||| | ||||| |||||||||| |||||| |||||||| || || || ||||| |||||||| |
aatcggtttgttccaacttgtgctatgctaatgtccttttggaccttcaatgcttt--gcttttattccaacttagactagaattgtttgct-tacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
attttgtgtattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtgagtattacattttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - -tgatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttggg