Sequence
atgc intronic sequence ATGC exonic sequencegtaacattttcatgagcttacagagacatttgtgtccaagttcatagctttaattgtcttattgaatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGGACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G55580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 3
------------------gtaacattttcatgagcttacagagacatt-tgtgtccaagttcatagctt------taattgtcttattg----aatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGG---ACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
|| ||| ||| || | ||| ||| | | | | | | || ||| || ||| || |||| | | ||||||| ||||||||||||||||||||| ||||| |||||| || || || | | || ||| | ||||| | || |
ttcacaattaattaatccaaaatggattctggagattgtatgtccatcatgttttcttacttctgccatcctacatacctgttttgttgttcctatgcagATTGTGGAGAAGTTTACACATGGGGATGGAGGGAATGTGTACCCTCTGGGAAGGTGTTTGGTGAATCATTAACTGGGGTAAGCCCTGAAAAGGATGTACC---
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 3
------------------gtaacattttcatgagcttacagagacatt-tgtgtccaagttcatagctt------taattgtcttattg----aatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGG---ACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
|| |||| ||| || | ||| ||| | | | | | | || ||| || ||| || |||| | | ||||||| ||||||||||||||||||||| ||||| |||||| || || || | | || ||| | |||| | || |
ttcacaaataattaatccaaaatggattcaagagattgtatgtccatcgtgttttcttacttctgccatcctacatacctgttttgttgttcctatgcagATTGTGGAGAAGTTTACACATGGGGATGGAGGGAATGTGTACCCTCTGGGAAGGTGTTTGGTGAATCATTAACTGGGGTAAGCCCCGAAAAGGATGTACC---
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 3
-----------------------------gtaacattttcatgagcttacagagacatttgtgtccaagttcatagctttaattgtcttattgaatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGG---ACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
| | ||| ||| | | | |||| || | | ||| | | || || | |||| || | |||||||||||||||||||| |||||||| ||| ||||||| || || || || | | || | | ||| | | | | |
acaatatcatcctattgggaaagagttttatgtcttttccattaagcaaagttttcttttgagtatcaatctataaatatgttttgtttttccttagcagAACATGGAGCAGTTTATACATGGGGATGGAAAGAATGTATTCCCTCTGGGAGGGTATTTGGTGAACCATCAACAGGGGTAAGTCTTGAGAAAGATGTGCC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttacagagacatttgtgtccaagttcatagctttaattgtcttattgaatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGGACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
tcttatt CT-rich tract
tttaattgtcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacattttcatgagcttacagagacatttgtgtccaagttcatagctttaattgtcttattgaatacagAGAATCAACAAGTTTATACATGGGGATGGAGGGAATGTATACCCACTGGGAGAGTCTTCGGACAAGTAGATGGAGATTCTTGTGAAAGAAACATATCGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA