Sequence
atgc intronic sequence ATGC exonic sequencegtgtgctagttttctctctattttgcatctccagtatcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
Basic information
species | Glycine max |
transcript | GLYMA11G06720.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 21
--gtgtgctagttttctctctattttgca---tctccagtatcg---ttgctatgttcatttctcatgttctttt---tttatgcat-agGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
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gtttgaattctttattcctggggtctgcaaagtgacaagtttcacattccctttttaagtggatcacatctgtttgaatatgtgtatcagGAACCGCCTACGGTTGCTTACTCAATTCTTGGAGCATCTAGTGAGTGAAGGTAGCCAAGATGTGCATGTCCACAATGCTCTTGGGAAAATCATCATCGAC
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G111355_T02 (Zea mays), 3'ss of exon 2
--gtgtgctagttttctctctattttgc--atctccagtatcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGG-AGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGT-------ACATAATGCCCTGGGTAAAATCAT-TATTGAC-------
||| | | || | | ||| | || || | | | || | ||||| | | | |||| || || || |||| || | | ||| | | | | || | ||| | ||| || | ||| | | | |
gtttgtttttcatatcctcccagtttacttattcacatgagtgaaggtagccaagatgtgcatgtccataatgctcttggtaaaatcatcattgacagCAACAACAATCCTGAGCATTTCCTTACTACCAACCCATTTTACGACTCTCGTGTTGTGGGTAAATATTGTGAAAAGCGGGATCCTACACTTGCTGTTGTT
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 22
gtgtgctagttttctctctat----tttgcatctccagt----atcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
||| | |||| || | | ||| ||| | | || || | ||| ||| || | |||| | || ||||||||||| || || ||||| ||||||||||||||||| ||||| || ||||||||||| ||||| |||||||| |||||||||||||| || |||
gtgcattgtttttacctgtgtaccgtttccattaatatttttaattcttattgctttcgttttatcattttgtgttttgtttgcagAAATCGTCTCCGTTTACTCACTCAGTTCTTGGAGCATCTTGTGAGTGAGGGTAGCCAGGATGTGCATGTTCATAATGCTCTGGGTAAAATCATCATAGAC
upper sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 22
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 3'ss of exon 22
------------------gtgtgctagttttc-----tctctattttgcatctccagtatcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
|| | | | | | | | | | | | ||| | | || | || ||| || | | ||||||||||||| ||| || | || |||||||| |||||| | ||||||||||| ||||| ||||| ||||| || ||||| || || || ||||| || ||
atattagaactaggttgcgtttttaaatgtctaaacattttagtgtcacgatttaaacatcctgacgtcgtcgagaactgatgag-ttgtggggtttatagGAATCGTCTGCGACTGTTGACACAATTCTTAGAGCATTTGGTAAGTGAAGGTAGCCAAGATGTGCATGTGCACAATGCTCTTGGGAAGATCATCATAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcatctccagtatcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
ttcatttctcatgttc CT-rich tract
atgttctttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgctagttttctctctattttgcatctccagtatcgttgctatgttcatttctcatgttctttttttatgcatagGAATCGTCTCCGATTGCTTACTCAATTCTTGGAGCATCTTGTAAGTGAAGGAAGCCAGGATGTACATGTACATAATGCCCTGGGTAAAATCATTATTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG