Sequence
atgc intronic sequence ATGC exonic sequence...tcttgatggaaacccttctcttttaggtttctaagggtttgaaggtctattccatgcatcgaataattaaagttgaaatcatgagcattttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
Basic information
species | Glycine max |
transcript | GLYMA09G39750.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os07g06820.1 (Oryza sativa), 3'ss of exon 7
-tcttgatggaaacccttctcttttaggtttctaagggtttgaaggtctattccatgcatcgaataattaaagttgaaatcatgagcattttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
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cctgcaatatgcacttattgttttttcgtaagggaactgtttagtgtattttttatgtgtataacaccttcagttttc-ccatatgcaacttctttttcagTTAATTACGACAATGCGGACACTCTACCAAAAATGCAAACTGGTCCATGGTGATCTGAGTGAATACAACATTCTTTATTTCGAG
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 7
tcttgatggaaacccttctcttttaggtttctaagggtttgaaggtctattccatgcatcgaataattaaagttgaaatcatgagcattttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
| | | || || ||| | || || || | | || || | | | | || || || || | | | || || |||||| | || ||| |||||| ||| |||||||| |||||||| |||||||| ||||||||||| ||||| ||||||||||||||
-gtatgtcttattttctcatttagagggtcctgagtgtatcattgta-atactttacttagacctgatat-gtcacgatta--atctcttcttatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTAGTGCATGGGGATCTCAGTGAGTATAACATACTTTATTTTGAA
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 7
tcttgatggaaacccttctcttttaggtttctaagggtttgaaggt-ctattccatgcatcgaataattaaagttgaaatcatgagcatttttt-------gtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
| | | || || ||| | || || || | | || || | || | || | | | | | ||| ||| |||||| | || ||| |||||| ||| |||||||| ||||||||||||||||| ||||||||||| ||||| |||||||||||||||
-gtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 7
---tcttgatggaaacccttctcttttaggtttctaagggtttgaaggtctattccatgcatcgaataattaaagtt--gaaatcatgagca---ttttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
| | || | || | || | | | | ||| | ||||||| | || | | | | | | | |||| | | || || ||| |||||| ||||| ||||||||||| || |||||||| |||||| |||| ||||| || |||||||||||||| |||||||||||||||
tgtacataatagtaatagatgatttattgtcacttta---tttta--gtctatttta---attgttttagtgatgcttagaaaccttatacacacttctttccatcagATGATTATGGCAATGCGGACGTTATATCAGAAGTGCAAACTGGTACATGGAGACCTCAGTGAATATAACATACTTTATTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctattccatgcatcgaataattaaagttgaaatcatgagcattttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
ttttttgtttc CT-rich tract
aataattaaagttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttgatggaaacccttctcttttaggtttctaagggtttgaaggtctattccatgcatcgaataattaaagttgaaatcatgagcattttttgtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
-cttgatg
- - - - - - -ccttctc
- - - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - -atgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgag