Sequence
atgc intronic sequence ATGC exonic sequence...cacacattccaagttaccatttcgaaccactttgataaaaatgtgttgcattccatagctgactaactaattgttcatcatggatggttttcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGGCATTGTATTGGCTCGTACAGGGATGCACAGCAGGCGACTCACTTGTCTT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02170.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ11817 (Selaginella moellendorffii), 3'ss of exon 1
cacacattccaagttaccatttcgaaccactttgataaaaatgtgttgcattccatagctgactaactaattgttcatcatggatggttttcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGGCATTGTATTGGCTCGTACAGGGATGCACAGCAGGCGACTCACTTGTCTT--
|| | || | ||||||||| | || || || | || || ||||||||||||||||||||| ||| ||||||||| ||||| |||| | || || || || |||||
--------------------------------------------------------------------------------------gtgatgatcc--agagGAAGAGAGAGACCCTCTACGACTTCCCACGAAGCAAAACATGAGGATGGCAATGTTTTGGCTCGTCCAGGGGTGCAAGTCGGGAGATTCTCTCGTCTTTC
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ22668 (Selaginella moellendorffii), 3'ss of exon 1
cacacattccaagttaccatttcgaaccactttgataaaaatgtgttgcattccatagctgactaactaattgttcatcatggatggttttcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGGCATTGTATTGGCTCGTACAGGGATGCACAGCAGGCGACTCACTTGTCTT--
|| | || | ||||||||| | || || || | || || |||||||||||||||||||| ||| ||||||||| |||||||||| | || || || || |||||
--------------------------------------------------------------------------------------gtgatgatcc--agagGAAGAGAGAGACCCTCTACGACTTCCCACGAAGCAAAACATGAGGATGGCGATGTTTTGGCTCGTCCAGGGATGCAAGTCGGGAGATTCTCTCGTCTTTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|116481363|gb|EG523955.1|EG523955EST: TCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCG AGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGG
genomic: TCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagta ... tcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcattccatagctgactaactaattgttcatcatggatggttttcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGGCATTGTATTGGCTCGTACAGGGATGCACAGCAGGCGACTCACTTGTCTT
ttttcattctc CT-rich tract
taactaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacacattccaagttaccatttcgaaccactttgataaaaatgtgttgcattccatagctgactaactaattgttcatcatggatggttttcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGGCATTGTATTGGCTCGTACAGGGATGCACAGCAGGCGACTCACTTGTCTT
cacacat
- - - - ccaagtt
- - - - - - - - - - - cgaacca
- - - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - ccatagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taactaa