Sequence
atgc intronic sequence ATGC exonic sequencegtacttagagatttcatttcgttctatcgaaactcggtttttcgtgatctctctgtttctgaattagttcatttgttttctcagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45150.3 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45150.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G06190.1 (Glycine max), 3'ss of exon 5
------------gtacttagagattt--catttcgttctatcgaaactcggtttttcgtgatctctctgtttctg-aattagttcatttgttttctcagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA-
| || | |||| ||| | ||| | || ||| | | | || || | ||| ||||| |||| || ||| | |||| |||| | ||||||||||| || ||||||||||| |||||||||||||| || || ||||| || || ||||||||||| ||
agtctaagatgaacatttgtacatttaccatgcaactttatatcctgtgaacagttattgacatgtggtcatttgtggtttttgcatgggttttgtcagtGCAATAGGTCTTGGTGTTCTAAGTTTCTTTGGGTCTGTTTTTGGTGATCTCACTGAATCAATGATTAAACGAGATGCAGGAGTTAAAGACTCTGGCACAC
upper sequence: AT2G45150.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G30030.3 (Glycine max), 3'ss of exon 6
-----------gtacttagagatttcatttcgttctatcgaaactcggtttttcgtgatctctctgtttctgaattagttcatttgt-----tttctcagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA
|| || || || || | |||| || | |||| | | ||| ||| || |||| ||| |||| || ||| | |||| |||| || ||| ||||||| || ||||||||||| |||||||||||||| || || ||||| || || ||||||||||| ||
ttcattctagtctaagacaagtgctcgttcatttaccatgcaactttgtatcctgtgaacagttagttggtgatttgtgatttttgcatggatttgtcagTGCAATAGGTCTTGGTGTTCTAAATTTCCTTGGGTCTGTTTTTGGTGATCTCACTGAATCAATGATTAAACGAGATGCGGGAGTGAAAGACTCTGGCACA
upper sequence: AT2G45150.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0048g00240.t01 (Vitis vinifera), 3'ss of exon 5
----------------gtacttagagatttcatttcgttctatcgaaactcggtttttcgtgatctctctgtttctgaattagttcatttgttttct--cagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA
| || || ||| | || | ||| ||| ||| | || | | | | | | | |||| | || ||| || |||||||||| ||||| || |||||||| || | ||||| || |||||||| ||||||||||| |||||||| || ||||||||||| || ||
tgaagttgattcaggtctgttttgaacttttacttaatgtc-caaaaatgaaaaattttgtgttgacta-gcatttaactcatcttctttgactgctgtcagTGCAATAGCTTTTGGATTTCTGAATTTCTTTGGATCTCTTTTTGGGGACCTTACTGAGTCAATGATCAAACGTGATGCGGGTGTCAAAGACTCCGGGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaactcggtttttcgtgatctctctgtttctgaattagttcatttgttttctcagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA
ttcatttgttttctc CT-rich tract
atttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttagagatttcatttcgttctatcgaaactcggtttttcgtgatctctctgtttctgaattagttcatttgttttctcagCTCAGTAGCTTTTGGGTTTCTTAACTTCTTTGGGTCAGTCTTTGGTGATCTTACTGAATCAATGATCAAGCGTGATGCTGGCGTCAAAGACTCTGGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG