Sequence
atgc intronic sequence ATGC exonic sequenceTCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGTTGCGGAGGAGCAAGCAATTGCTGCTAAGGATGATAATGATTCTATAGAAACAAgtattttactttccttaaagcttataatgaaaaatgtttttattgttttcttcaaagattgtttctttactttgaatctgttgtttatttgttggtgttaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G38330.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G38330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA07G19210.1 (Glycine max), 5'ss of exon 4
TCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGTTGCGGAGGAGCAAGCAATTGCTGCTAAGGATGATAA--TGATTCTATA----GAAACAAgtattttactttccttaaagcttataat----gaaaaatgt-----ttttattgttttcttcaaagattgtttctttactt-tgaatctgttgtttatttgttggtgttaaag---------------
||||||||||||||||| ||||| || ||||| ||||||||||||||||| ||| | | ||||| || | ||||| |||| |||| || | || | | | | | | | |||| ||| ||| | ||| ||||| | ||| | || || | | |||| | | | |
------GCATTCAATGTTCCTTTACTTAATGTTACTACATCCTTTGTTGCGGAGGAGCAGGCACTGATTAGGAAGGAGGAAGAGTCCATTCTGAGTGATGAAAATGgtatgtttttcaactaaggtatcacagtttcagtaggatgtgtacatttgcttgacatggtcacagattttcctttttcagatgtatatacaaataatttttatctcatgtgggtcatgatttctcag
upper sequence: AT2G38330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G43740.1 (Glycine max), 5'ss of exon 4
TCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGTTGCGGAGGAGCAAGCAATTGCTGCTAAGGATGATAA--TGATTCTATA-GAAACAAgtattttactttcc----------ttaaagctt--ataatgaaaaatgttttta-ttgttttcttcaaagattgtttctttactttgaatctgttgtttatttgttggtgttaaag--------------------------------------------------
||||||||||||||||| ||||| || |||| ||||||||||||||||| ||| | | ||||| || | |||| | || | || | | | ||| | | |||| || || || | ||| ||| | ||| ||||| | ||| || || | | ||| || | | |
------GCGTTCAATGTTCCTTTACTTAATGTTACTGCATCCTTTGTTGCGGAGGAGCAGGCACTGATTAGGAAGGAGGAAGAGTCCATTCCAAGTGATAAAAATGgtatgtttttcaactatggtatcaaagttttagtagggatgtctacatttgcttgacatggtcatagattttccttttcagatgtatatacaaatagttt--tgatctcatgtgggtcatgatttctctggcaagtaccaaagctagaagctccttccttcagMapped 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|19876049|gb|AU236880.1|AU236880EST: GGAGGAGCAAGCAATTGCTGCTAAGGATGATAATGATTCTATAGAAACAA GCAAGAAAGTGCTGCCTTCGGTTTCAACTTCATTAGTTCTTGCTGCTGGAG
genomic: GGAGGAGCAAGCAATTGCTGCTAAGGATGATAATGATTCTATAGAAACAAgtattttact ... ggtgttaaagGCAAGAAAGTGCTGCCTTCGGTTTCAACTTCATTAGTTCTTGCTGCTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGAAGCTCTTCAATGTTCCTTTACTAAATGTCACAACATCGTTTGTTGCGGAGGAGCAAGCAATTGCTGCTAAGGATGATAATGATTCTATAGAAACAAgtattttactttccttaaagcttataatgaaaaatgtttttattgttttcttcaaagattgtttctttactttgaatctgttgtttatttgttggtgttaaag
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG