Sequence
atgc intronic sequence ATGC exonic sequencegtgtgattctctgaatatatgtgcttaagcatataccatttttcatacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G47380.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G47380.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G04210.1 (Glycine max), 3'ss of exon 7
gtgtgattctctgaatatatgtgcttaagcatataccatttttcatacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
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-----------------------gttggttttgtagcaagtgttctgaatgttagcat-attgctctccagttatgtcttctga------catggaaacatctttgtctgagatgcagGTTAGAAACAAAATATCCACTTTGCAACATGTTCAAGTTGTTCATCTGTGCAGTGTGTCAGGTAGAGATTAAACCCGGGGAGGGTATTTCCATACATGAG
upper sequence: AT1G47380.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G36150.1 (Glycine max), 3'ss of exon 8
gtgtgattctctgaatatatgtgcttaagcatatacca-tttttcatacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
| ||| | || || || | | || | | | | || | | | |||| || | | | | || |||| | ||||| ||||| || || || || | ||||| ||||| |||||||| |||||||| || ||||||||||| | ||||||||||| ||| | || || || |
----------------------gtttagttttgtagcagcttgccgaagttaaccacatgctctctagttttttctcttgacaa--------taaaatatgtttgtctga--aatgcagGTTAGATACTAAATATCCAGTCTGCAACATGTTCAAGTTGTTTATGTGTGCAGTATGTCAAGTAGAGATAAAACCTGGAGAGGGTATTTCAATACACGAG
upper sequence: AT1G47380.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G36150.2 (Glycine max), 3'ss of exon 7
gtgtgattctctgaatatatgtgcttaagcatatacca-tttttcatacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
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---------------------ggtttagttttgtagcagcttgccgaagttaaccacatgctctctagttttttctcttgacaa--------taaaatatgtttgtctga--aatgcaGGTTAGATACTAAATATCCAGTCTGCAACATGTTCAAGTTGTTTATGTGTGCAGTATGTCAAGTAGAGATAAAACCTGGAGAGGGTATTTCAATACACGA-
upper sequence: AT1G47380.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0001g10700.t01 (Vitis vinifera), 3'ss of exon 8
gtgtgattctctgaatatatgtgcttaagcatataccattttt-catacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgttt-attgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
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-----------------cctcccctccccctcattctttttctgcgtggcctatatgattaaaaaggtcaagcaggtttgt---agttctttgacatatgtttgtggtgattgattgcagGCTAGATGCGAAATACCCGATATGCAACGTGTTTAAGTTGTTCATGTGTGCAGTTTGTCAAGTAGAGATGAAACCTGGAGAGGGTATATCTATACACGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
ttttctttcgtttttt CT-rich tract
tttttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgattctctgaatatatgtgcttaagcatataccatttttcatacttgatagcttcatttcgatctactaatcttaaccaagttttctttcgtttttttcttctgtttattgcagATTAGACACAAAGTACCCGCTTTGCAATATGTTTAAGTTGTTCATGTGTGCTGTGTGTCAAGTAGAAGTGAAACCTGGAGAAGGTGTCTCGATCCATGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA