Sequence
atgc intronic sequence ATGC exonic sequencegtactcacttaactatagttttcgttgagtcatctttaacctgaccgggcatgaccggtttttttaaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G12050.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G12100.1 (Glycine max), 3'ss of exon 7
-------------------------gtactcacttaactatagttttcgttgagtcatctttaacctgaccgggcatgaccggtttttttaaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
|| | | ||| ||| || | || | || ||| || || || | | | | || ||| | | | |||| | ||||||||||| ||||| ||| | |||||||||||||| || || ||||||||||
gtagttttccaattcaatatattatttatttatttatttattattattatta--ttattattattatgcccaataattgatgctctactgaattgtatttggc---agCTCGAGATATTCAGGCATGGGAATATATTCCTCTTGGTCCTTTTCTTGGCAAGAGTTTTG
upper sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0187g00340.t01 (Vitis vinifera), 3'ss of exon 7
gtactcacttaactatagttttcgttgagtcatctttaa--cctgaccgggcatgac--cggttttttt------aaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
|| || | || ||||| |||| | || | | ||| | | | ||| | | | | ||| || | | ||| || ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||||||
--------gtacacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG
upper sequence: AT1G12050.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0187g00300.t01 (Vitis vinifera), 3'ss of exon 4
gtactcacttaactatagttttcgttgagtcatctttaa--cctgaccgggcatgac--cggttttttt------aaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
|| || | || ||||| |||| | || | | ||| | | | ||| | | | | ||| || | | ||| || ||||||||||| ||||| ||||| |||||||| ||||| || |||||||||||||
--------gtatacatgttatttgttgattcatttccaagttttcattgggtttaatatcagttctatcttgacaagaagttgtttttgacagCAAGAGATATTCAGGCATGGGAATATGTGCCTCTTGGGCCTTTTCTTGGGAAGAGTTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatctttaacctgaccgggcatgaccggtttttttaaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
acctgac putative branch site (score: 3)
tttttttaaatgtttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactcacttaactatagttttcgttgagtcatctttaacctgaccgggcatgaccggtttttttaaatgtttgttgttatagCTAGGGATATTCAGGCGTGGGAGTATGTACCTCTTGGTCCTTTCCTGGGGAAGAGTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA