Sequence
atgc intronic sequence ATGC exonic sequencegtcagttctttcttgattggaaaacctctgaatctataaatgtctggggaaatgtcaatgattctgtttagaattcaccacatatggtttatttggttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14145.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14145.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G35430.1 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------------------gtcagttctttcttgattggaaaacctctgaatctataaatgtctggggaaatgtcaat--gattctgtttagaattcacc---acatatggtttatttg-gttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
| | ||| |||| | | || || || | || | ||||| || || | || ||| | |||| | | || || | |||| ||||||||||||||||| |||||||| || || ||||| || || ||||||| ||| ||| | || | || ||||| || |||| || || || |||
gttagtcacttagttactaccctataacttttatgttctagaaaatagtctagtgtaaattagggttcacttttacaataattaatttaccgtaacttcattgcatagaaactaaa-ctctgtattctttttccaatgttcattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCAGGAGTGGGAAATAATTGAAACAAAAAAAGCATTGTCTAAGACTGGACCAGTGAATGCATACAATCCAAAA
upper sequence: AT4G14145.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G32090.1 (Glycine max), 3'ss of exon 1
gtcagttctttcttgattggaaaacctctgaa-tctataaatgtctggggaaatgtcaatgattctgtttagaattcacc---acatatggtttatttg-gttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
| |||||| | | || || ||| || | | | | | || | || ||| | |||| | | || || | |||| ||||||||||||||||| |||||||| | || ||||| || || ||||||||||| || | || || |||||||| || |||| || || || |||
----------acctgattgaatagaaactaaactctgtattctttttccaatgtttattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtcaatgattctgtttagaattcaccacatatggtttatttggttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
tttagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttctttcttgattggaaaacctctgaatctataaatgtctggggaaatgtcaatgattctgtttagaattcaccacatatggtttatttggttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA