Sequence
atgc intronic sequence ATGC exonic sequence...aaaataaaattttgcttgattatcaagttatgatatatttatacaattgtactgcatataatgcttaagactccttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
Basic information
species | Glycine max |
transcript | GLYMA20G16070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G16070.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G158093_T01 (Zea mays), 3'ss of exon 2
aaaataaaattttgcttgattatcaagttatgatatatttatacaattgtactgcatataatgcttaagactcc-ttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
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ttggtttaaacctgtatagtaagctcgtggtcttaaataacggttggggcaatatgcattgtgttacctactgagcttatgcactatttttttt-ttacagGAGTAGCATAACACGTGAGAAATTTGAAGAGCTCTGTGAGGATTTATGGGAGCAAGCTCTGACTCCAGTTAAAGAAGTGCTGACACATTCTGGCATGAAG
upper sequence: GLYMA20G16070.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G020040_T01 (Zea mays), 3'ss of exon 2
--aaaataaaattttgcttgattatcaagttatgatatatttatacaattgtactgcatataatgcttaagactccttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
| | || |||| | | | | || | | | | | | | || | | ||| | | ||| ||||||||| || ||||| |||||||||||||||||||| ||||| || | ||||| || | || || || ||||| ||||| ||||||||| ||
tttagaccttatacatattgagcttgtggccttaaataatggttggggcaattttcattgtgttacctactgagcttatgcacta--tcttttttgttacagGAGTACCATAACACGTGAGAAATTTGAAGAGCTGTGTGAGGATTTATGGGAGCAAGCTCTAACTCCAGTTAAAGAAGTGCTGACACATTCTGGCATGAAG
upper sequence: GLYMA20G16070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0008g04410.t01 (Vitis vinifera), 3'ss of exon 2
aaaataaaattttgcttga--ttatcaagtt-atgatatatttatacaattgtactgcatataatgcttaagactccttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
| ||| |||| |||| || ||| | ||| | | ||| | || || | || | ||| | | ||| |||||| || ||||| |||||||| ||||| |||||||||||||| | ||||| | ||| || | |||| ||| || |||||| || |||| || ||
---actttctttaccttggagttatgcgtttgatggttggcttaggtagataaactaaacattattaatcttgcttatcagagattggccttttctctgccagGAGTACCATAACTCGTGAGAAGTTTGAGGAGCTCTGTGAAGATTTGTGGGAGAGATCTCTTATTCCTGCGAAGGAAGTGCTTAAGAATTCAGGTTTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtactgcatataatgcttaagactccttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
cttcctttcttac CT-rich tract
atataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaataaaattttgcttgattatcaagttatgatatatttatacaattgtactgcatataatgcttaagactccttcacacaaggcttcctttcttacagGAGCACAATAACCCGTGAGAAATTTGAAGAGCTCTGTGAAGACATTTGGGAAAAATCACTCTTACCTGTGAAAGAGGTGCTTGAGCATTCTGGCCTGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
aaaataa
- - - - - - tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgctt