Sequence
atgc intronic sequence ATGC exonic sequencegtatgtagtttttggtatttccagtttgtaatcctttatttctttagaagaatgttgattccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71900.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G104147_T03 (Zea mays), 3'ss of exon 5
gtatgtagttttt--ggtat------ttccagtttgtaatcctttatttctttaga--agaatgttg----attccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC
|||||| ||||| |||| || | || || ||||| | ||| | |||| | | ||| ||| | | ||||| | || || || |||| |||||||||| ||| |||||||| || || ||||| || || |||||||||||||| ||||| |||||||| || ||| || | | | |||
gtatgttttttttcaagtatatatggatcaaacatgatattttttatgtttttcaactggaatttcacacagtaccatttttct--atctgatagc-tagaagttttg--tagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTCTCAGGAACAAATCAATTATTCTATCCTCAGACTTGGGCCTTTGCAGTAATTGTAG
upper sequence: AT1G71900.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G129268_T01 (Zea mays), 3'ss of exon 5
gtatgtagttttt--ggtat------ttccagtttgtaatcctttatttctttaga--agaatgttg----attccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC
|||||| || | |||| || || || || ||||| | | | |||| | || ||| ||| | | ||||| | | || ||| ||||| |||||||||| ||| |||||||| || || ||||| || || ||||||||||| || ||||| |||||||| || ||| || | || | |||
gtatgtttttctccaagtatatatggatcaagcatgatattttttatgtttgccaacttgaatttcacaaaataccatttttct--atctgatagtatgaagcttt---gcagGTTATGAGTGTAAGAGCTCTTGGAATTGCCTTGAAGCTAACATTGTCAGGAACAAACCAATTATTCTATCCTCAGACTTGGGCCTTTGCACTGATTGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaagaatgttgattccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC
taaattgatattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtagtttttggtatttccagtttgtaatcctttatttctttagaagaatgttgattccactttgcctaaattgatattgtcaaacttgtgaacagGTAATGAGTGTAAAAGCACTTGGAATAGCATTAAAGCTGACCTTTTCAGGAACAAATCAGTTATTTTATCCTCAAACATGGATATTCACCTTGGTCGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA