Sequence
atgc intronic sequence ATGC exonic sequencegtgtgacatctaagcctctcaagcttcctttcgctgtatggtattccatttcaccattcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G20980.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G20980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G15140.1 (Glycine max), 3'ss of exon 10
-------------------gtgtgacatctaagcctctcaagcttcctttcgctgtatggtattccatttcaccattcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
| || | || | | | | ||| |||| || | ||||| || ||| | ||||| ||| || ||||| | ||| ||||| | || ||||| |||||||||||||| ||||| || || ||| | ||||| |||||||||||||||||||| ||
gtatgaaaataattctttatggctaccttgcaggtttgaatgatcgtttttgctggatatctgttcatttaac-attatc-ttgttattagATTCGAAACATGCTACCAGATTGCTTTGGCTATCAAGGATGAGGTTGAGGATCTTGAGAAAGCAGGTATTACTGTCATCCAGATTGATGAAGCTGCTCTA
upper sequence: AT5G20980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA04G30350.1 (Glycine max), 3'ss of exon 10
----------------gtgtgacatctaagcc--tctcaa-gcttcctttcgctgtatggtattccatttcaccat-tcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
| |||| | | || | | || | || ||| |||| || | ||||| || | ||| ||||| ||| ||| ||||||| ||| ||||| | || ||||| |||||||||||||| ||||| || |||||| | ||||| |||||||||||||| ||||| ||
gtatgaaaataatcctttatgactaccatgctgatttaaatgatttgttttgctggatatctgttcatttaacattatctatttgttattagATTTGAAACATGTTACCAGATTGCTTTGGCTATCAAGGATGAGGTTGAGGATCTTGAGAAAGCTGGTATTACTGTCATCCAGATTGATGAGGCTGCTCTA
upper sequence: AT5G20980.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv06s0009g01080.t01 (Vitis vinifera), 3'ss of exon 10
---------gtgtgacatctaagcct--ctcaagc--ttcctttcgctgtatggta----ttccatttcaccattcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
| || | || || |||| | || || | | | || || || | | || | || | ||| ||||| || | || ||||| | ||||||||||| ||||||||||| ||||||| || ||| | ||||| |||||||||||||| ||||| ||
gtaagaaaatcaagccaaccaaatctatctcagtcgatttctacgattttgttataatgattgaatctaatgcttttacctgatcttagATTCGAGACTTGCTATCAGATTGCTTTGGCCATCAAAGACGAGGTTGAGGATCTTGAAAGAGCAGGTATTACTGTCATCCAGATTGATGAGGCTGCTCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcaagcttcctttcgctgtatggtattccatttcaccattcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
ttcttgtt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgacatctaagcctctcaagcttcctttcgctgtatggtattccatttcaccattcttgttgtttgtagGCATGAGACATGTTTCCAAATTGCACTTGCCATCAAAGATGAGGTTGAGGACCTTGAAAAGGCTGGTGTCACTGTTATCCAGATTGATGAAGCTGCATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC