Sequence
atgc intronic sequence ATGC exonic sequence...ggcaaactatcaagttctaaaacacaaaccgttagttacttttttgggttttctttaacttttatttattttatcttgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
Basic information
species | Glycine max |
transcript | GLYMA08G23320.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------ggcaaactatcaa-gttctaaaacacaaaccgttagttacttttttgggttttct-ttaacttttatttattttatct-tgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
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gcatgaggttttttatgttacagtggtgatgatgttgatgggaaatattctcattctgttataacttatcaaccaaatgctgaataatgaatcaatcattggtttttctttgaatacagTAATTGGAACAGCATTTGCTTTAAACATGCTATTCAATATCCCGGTTTGGATTGGTGTTCTTCTCACAGGACTTAGTACATTGATTCTTCTAGCACTTCA
upper sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 3'ss of exon 5
--ggcaaacta--tcaagttctaaaacacaaaccgttagttacttttttgggttttctttaacttttatttattttatcttgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
|| ||| | | | || | | | || | || | | | ||| ||| | | | | | || ||| | || | ||| || || ||||| ||||| ||||||||||||| | |||||| || ||||| ||||||||||||||||| | ||||| |||| || | ||| | ||
gtatcacacttgtttactctttacagtgtgattcaatactaacctctctctgttgatactaattgccaa--aatcggtttt--cttatatatatatatatatagTTATCGGAACAGCTTTTGCTCTGAACATGCTCTTTAGCATACCGGTGTGGATCGGTGTTCTTCTGACAGGCTTAAGTACGCTGATTCTTCTCGCACTTCA
upper sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 6
-ggcaaactatcaagttctaaaacacaaaccgttagttacttttttgggttttctttaacttttatttattttatcttgacttt--ctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
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taatggtttcttaagtgc--atcctctcttcatta-ttattaacttgatgtgtcatgcacatttcttcaacctattctgatttctgcatgtttctttttccagTGATTGGAACAGCCTTTGCATTGAACATGCTCTTCAATATTCCTGTGTGGTGTGGTGTTCTTCTTACAGGGCTTAGTACATTGGTTCTTCTAGCTTTACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggttttctttaacttttatttattttatcttgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
tcttgac putative branch site (score: 3)
tttaacttttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcaaactatcaagttctaaaacacaaaccgttagttacttttttgggttttctttaacttttatttattttatcttgactttctggcctgcatgtgcagTAATTGGGACAGCCTTTGCATTGAACATGCTCTTCAACATACCAGTTTGGATTGGTGTTCTTCTGACAGGATCCAGTACATTGATCCTCTTAGCATTACA
- - - - - - - - - - - -acaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctggc