Sequence
atgc intronic sequence ATGC exonic sequencegtacgtaactgctaagatgagagatttcccgttcaggttagattcactcttgataaaaatatgtcttgtgttaatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14270.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G05100.1 (Glycine max), 3'ss of exon 10
------gtacgtaactgctaagatgaga----gatttcccgttca---ggttagattcactcttga----taaaaatatgtcttgtgtt------aatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
|| | || | | || | | || |||| | ||| | |||||| | || | || | | || | |||| || ||||||| ||||| | ||||| ||| ||| |||||||||| || |||||||||||||||||||| | || ||||||| ||| |||||||| |
tattaattattggattgatgatatataattctgcattttgcttcacatgattatctattatcttgaccacttaatttttggatggcattctcttcgaaagGTTACATCAAAGCATCTTAAAGGAGGGAAGGAATCAAGGATGGATGTTTTGGTTATGGAGAATCTTCTGTTTAGGAGGACTGTGACACGACTTTATGATC
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G01590.1 (Glycine max), 3'ss of exon 11
------gtacgtaactgctaagatgaga----gatttcccgttca---ggttagattcactcttga----taaaaatatgtcttgtgtt------aatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
|| | || | | || | | || |||| | ||| | | |||| | | ||||| || | | || | |||| || ||||||| ||||| | ||||| ||| ||| |||||||||| || |||||||||||||||||||| | || ||||||| || |||||||| |
tgttaattattggattgatgatatataattctgcattttgcttcacttgattatctactatcttaaccacttaaaatttggatggcattctgttcgaaagGTTACATCAAAGCATCTTAAAGGAGGGAAGGAATCAAGGATGGATGTTTTGGTTATGGAGAATCTTCTGTTTAGGAGGACTGTGACCCGACTTTATGATC
upper sequence: AT3G14270.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv09s0002g00380.t01 (Vitis vinifera), 3'ss of exon 14
---------------------gtacgtaactgctaagatgagagatttccc--gttcaggttagattcactcttgataaaaatatgtctt-gtgttaatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
||| | | | | | || || | || | | | ||| | | ||||||| |||| |||| | | ||||| || || | ||||| ||| ||| ||||||| ||||| ||||||||||||||||||||| ||| ||||||| |||||||||| |
tggtatagaaatttcatatggttacctctccataacagtcaattatacccaaagctccatctgcactgactttctcttcttg-atgtctttatgttggaagGTTACGTCCAAGCATCTGAAAGGAGGGAAGGAATCAAGGATGGATCTTCTGGTTATGGAGAATCTTCTGTTTGAAAGGACTGTGACGAGGCTTTATGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttcccgttcaggttagattcactcttgataaaaatatgtcttgtgttaatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
tcttgat putative branch site (score: 4)
tcttgataaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtaactgctaagatgagagatttcccgttcaggttagattcactcttgataaaaatatgtcttgtgttaatagGTCGCAACAAAGCAACTTAAGAGCGGGAAAGAAACAAAGATGGATGTTCTGATTATGGAGAATCTTCTGTTTGGAAGAACTGTGAAACGGCTTTATGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC