Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaataatctcttcttcatcagaaaccttccttaccgatgaagtcaaagcctacttatcaataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G10780.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G10780.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G05200.1 (Glycine max), 3'ss of exon 3
-----gtaaaaataatctcttcttcatcagaaaccttccttac-cgatgaagtcaaagcctacttatcaataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
| | ||||| | || | | | ||| || ||| | | ||| | || || || |||| ||||||| | || | |||||| ||| || ||||||||||||||||| |||||||||||||| ||||| || || ||||| || |||| || |||||||| |
gtaaattcacaataacatttttat-gttataaatctgatttaggttgttctatgaaatcttatctaatgatgatgt----------tcatttgcagGTGGATCCAGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGATCACCACTAAATGCCGAACAAAAAATGAGTACTCTTGAATCCTTGT
upper sequence: AT1G10780.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G19820.1 (Glycine max), 3'ss of exon 2
gtaaaa--ataatctcttcttcat--cagaaaccttccttaccgatgaagtcaaagcctacttatc-aataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
||||| ||||| | | || || | || || ||| || | | |||||| ||| ||| | | |||| ||||| | || | |||||| ||| || ||||||||||||||||| ||||||||||| || ||||| || || ||||| || |||| || |||||||| |
gtaaattcataataacattttgatgttacgaatctgatttaggtggttgttctatgaaatcttatctaatgatg--atgttcatt-----tgcagGTGGATCCGGGATTTTTAATTCCATGTTTGGAGGAGGTTGTGATCACAGTGAGGTCACCACTAAATGCTGAACAAAAAATGAGTACTCTTGAATCCTTGT
upper sequence: AT1G10780.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G30340.1 (Glycine max), 3'ss of exon 3
gtaaaaataatctcttcttcatcagaaaccttccttaccgat-gaagtcaaagcctacttatcaata-atgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
||||| | || || || | | ||| || || | | | ||||| || ||| || | | ||| | || | ||||| || |||| ||||||||||||||| ||||||||||| || || || || || |||||||| |||| || ||||||||| |
------------gtaagttcataataattctacccttctgattgaggtgttatttaatatttcaattcatctaatgaggatatt--tcacagGTGGATTCAGGATTCGGGATTCCGTTTTTGGAGGAGGTTGTGATCACAGTGAGGTCACCTCTTAATGCTGAACAGAAAATGAGTACTCTTGAATCATTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taccgatgaagtcaaagcctacttatcaataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
cctccattctctttgc CT-rich tract
ttatcaataatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaataatctcttcttcatcagaaaccttccttaccgatgaagtcaaagcctacttatcaataatgtaacctccattctctttgcagCTTGAGACCGGATTTACAATACCGTGTTTGGAGGAGGTTGTTATCACAGTGAGATCTCCACTGAACGCAGAACAGAAGATGAACACGCTTGAATCACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG