Sequence
atgc intronic sequence ATGC exonic sequence...aaaaatatatagttgagaattttgcatctttatatgggatgttcttatattcttcctagcaactagtggccttgtttttactgtctttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
Basic information
species | Glycine max |
transcript | GLYMA02G35240.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os10g33275.1 (Oryza sativa), 3'ss of exon 7
-----aaaaatatatagttgagaattttgcatctttatatgggatgttcttatattcttccta-gcaactagtggccttgtttttactgtctttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
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cttttgatgctatataaacaattttgccttatttctatgtggg-taagctcattttgttgttacgtaacttatat-----ttgctgcaaacaatatatgaatacagGTTCAGGAGCCAGACTTAGTTGGTGTAAGCCATTTACTAGTTGATGAAATTCATGAACGTGGCATGAATGAAGATTTTCTCATCATAATTCTTCGCGACC
upper sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G863698_T01 (Zea mays), 3'ss of exon 1
aaaaatatatagttgagaattttgcatctttatatgggatgttcttatattcttcctagcaactagtggccttgtttttactgtctttgttgttaaat---agGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
|| | | || | | | ||||| | | | ||| || ||||| | | | | ||| ||||||| | || ||||| |||| ||||| || ||||| | ||| || |||||||| || || ||||||||||||||| | |||||||||||||| ||| | || ||||| |||||||||
-ctgatgca-atttaatgcaaccgattgtttattttttgtatgcttgaatgcttccattttagttgcg-ttttgaatttactgaaatagtatataaattgcagGTTCAAGAGCCTGACTTAATTGGGGTGAGTCATTTACTAGTTGATGAAATTCATGAACGCGGCATGAATGAAGATTTTCTCATCATAATACTACGTGACC
upper sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 6
---aaaaatatatagttgagaattttgcatctttatatgggatgttcttatattcttcctagcaactagtggccttgtttttactgtct--ttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
| | | | || | | | | | || | | ||| ||| | | | | | ||| | | |||||| | || | | || || | | ||| || || |||||||| |||||||| ||||| |||||||||||||||||||| ||| || | || || |||| || |
gtaagatacaactattctactactcaactactcatcacatgtagttgaagtatgatattttaagcttctttactttgaaatgtcgaatcaattgttgaaatgcagATTGAGGATCCTAATCTAACTAACGTAAGCCATTTGCTCGTGGATGAGATTCACGAAAGAGGCATGAATGAAGATTTTCTACTAATCATACTACGCGATC
upper sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 6
aaaaatatatagttgagaattttgcatctttata-tgggatgttcttatattcttcctagcaactagtggccttgtttttactgtctttgttgttaaata--gGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
|| | || | ||| || ||| ||||||| | | | | || | | | | | | || |||| ||||||||| ||| || |||||||| | |||||||| || |||||||| |||||||||||||||||||||||||||||||| ||||| | | |||||||| | |||||
tgtcatttgaaggattagttgttgtataagcatactgggatggc---acacacattctgatgttttcttttccattctcttatgattttgatgttaaatacagGTTCAGGACCCAGATCTAACTGGTGTAAGCCATTTGCTAGTGGATGAAATTCATGAAAGAGGCATGAATGAGGACTTCCTTTTAATAATTTTGCATGACC
upper sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S36_206V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------------------------aaaaatatatagt---tg--agaattttgcatcttt--atatgggatgttcttatattcttcctagcaactagt-ggccttgtttttactgtctttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
| | | | |||| || |||| |||||| | || || || | | | | | | | | | || | | || ||| |||||| ||||| || ||||||| |||||| |||||| | |||| || |||||||||||| | |||||||||||||| || ||| | || |||||||| || |
gtacgttctgtgccttatattacgaacttggagattctttttcattgtatgattgtctagtacttggcagaaatttgcagtgcagaagatcaatggtaggtaggaaccacttcgtcatttgccagtactaacttgttggcatgtggggttgcatagGTCCAAGAGCCTGACTTGAATGGTGTGAGTCATGTCATGGTTGACGAAATTCATGAACGCGGCATGAATGAAGATTTCTTATTGATCATTTTACGAGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattcttcctagcaactagtggccttgtttttactgtctttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
tctttgtt CT-rich tract
tttgttgttaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaatatatagttgagaattttgcatctttatatgggatgttcttatattcttcctagcaactagtggccttgtttttactgtctttgttgttaaatagGTACAAGACCCAGACTTGACTGGTGTTAGTCATTTGCTGGTGGATGAAATTCATGAAAGAGGCATGAATGAAGACTTTTTAATTATAATTTTACGTGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
aaaaata
- - - - - - - - - - - tgcatct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tactgtc