Sequence
atgc intronic sequence ATGC exonic sequence...aattgaaagtttcatcctttttatcatcagattctggctatggatgtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34050.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34050.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S16_28V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------------------------aattg--aaagtttcatcctttttatcat-cagattctggctatggatgtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
|||| | || |||| | | ||| | | || |||| ||| || ||| || || | || ||| | ||| | || || |||||||||||||||||||||||| |||| || ||||
gtgaaatctcgtccaagacaactctgtgctccaggaatcattttgtccagaatgttcagtccaacgaagacgatgggttcaattattgacgtcgagaactttcgacggtgcagGTGATTGCGCTGGACATCAGCAAGGAGTGGTATGACATTGGAGCGCCGGTAATTCAAAAGGCGGGCGTTGCTCACAAGATCGACTTCCGGGACGGACCTG--------------------------------
upper sequence: AT4G34050.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ22516 (Selaginella moellendorffii), 3'ss of exon 3
-----------------------aattgaaagtttcatcctttttatcatcagattctggctatggatgtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
| | | | | || ||| | || || ||||| ||||||| |||| | || | || | ||| ||| | | |||||||||| |||||||||||||| ||||||||||| || |
gtaaaatcttagaaagtataaccagccatacctgtgctgacgcggatgcacagGTGCTAGCCATGGACATCAACAGGAAGAACTTTGAGCTCGGCTACCCGTACATGGTGGAAGCCGGCGTGGCTCACAAGATCGATTTCAGGGAAGGACCCG--------------------------------
upper sequence: AT4G34050.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ11728 (Selaginella moellendorffii), 3'ss of exon 3
-----------------------aattgaaagtttcatcctttttatcatcagattctggctatggatgtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
| | | | | || ||| | || || ||||| ||||||| |||||| || | || | ||| ||| | | |||||||||| |||||||||||||| ||||||||||| || |
gtaaaatcttagaaagtataaccagccatacctgtgctgacgcggatgcacagGTGCTAGCCATGGACATCAACAGGAAGAATTTTGAGCTCGGCTACCCGTACATGGTGGAAGCCGGCGTGGCTCACAAGATCGATTTCAGGGAAGGACCCG-------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
agaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgaaagtttcatcctttttatcatcagattctggctatggatgtcaacagagagaattacgaattgggtttaccgatcattgagaaagccggcgttgCTCACAAGATCGACTTCAGGGAAGGCCCTGCTCTTCCCGTTCTTGATGAAATCGTTGCTGAC
- - - - - - - - - - - - - - - - - - - - - - - -caacaga