Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G24990.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 7
-gtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
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tcttgatggaaacccttctcttttaggtttctaagggtttgaaggt-ctattccatgcatcgaataattaaagttgaaatcatgagcatttttt-------gtttcagATTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCATGGTGATCTCAGTGAATATAATATACTTTATTTTGAG
upper sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 7
gtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG-
| | | || || ||| | || || || | | || || || | ||| | ||| || | ||| | |||||| |||||| | || ||| |||||| ||| |||||||| |||||||||||||| || ||||||||||| ||||| |||||||||||||||
cttgatggaaacacttctgttttaggtttctaagggtttgagggtctttt--ccatgcatcaaataattacagttgaaatcgtgag--catttttt----gtttcagaTTATTATTGCAATGCGGACATTGTATCAGAAATGCAAATTGGTGCACGGTGATCTCAGTGAATATAATATACTTTATTTTGAGG
upper sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 7
gtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
| | | || | | | | | | | |||| | | | | ||| | | | ||| | || | | | || | | ||| ||| |||| || |||||| |||||||||||||||||| |||| |||||||| |||||||| |||||||||||||||||||||
-tgtacataatagtaatagatgatttattgtcactttattttagtct----attttaattgttttagtgatgcttagaaaccttatacacacttctttccat--cagATGATTATGGCAATGCGGACGTTATATCAGAAGTGCAAACTGGTACATGGAGACCTCAGTGAATATAACATACTTTATTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
tactgac putative branch site (score: 1)
tccttttttctgcatt CT-rich tract
ttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcttattttctcatttagagggtcctgagtgtattatggcattacagtcaggattcatctctttatggtctctttactgacatccttttttctgcatttcagTTGATAATTCAAATGCGAGTATTATATCAGAAGTGCAAATTGGTGCATGGAGATCTCAGTGAGTATAACATACTTTATTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC