Sequence
atgc intronic sequence ATGC exonic sequenceTCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgtaagaatcttcaaattcttagtctttttgtttcttcttccttatctgatctgtttttttttgggaatctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36910.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G06220.1 (Glycine max), 5'ss of exon 4
TCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgtaagaatcttcaaattcttagtctttttgtttctt------------cttccttatctgatctgtttttttttgggaatctcag--------------------------------------------------------------------------------------------------------
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CCAGGACATTCAATTCTTTGACACCGAGGTTCGAACATCCGATGTTGTTTTTGCCATCAACACTGATGCTGTTATGGTACAAGATGCCATTAGCGAGAAGgtga---tctcaaaacacgagcctttgttgttttttgcattagaataatttctcgaatttatgtagtttcattcaagagactgagctctcccaagagacatgcttatcagtcagccatactgtgctatgttggtacttggtattgttagtgtttaatatgattactgattctggtttctctgtttgcag
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA03G34080.1 (Glycine max), 5'ss of exon 3
TCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgta-------agaatcttcaaattcttagtctttttgtttcttcttccttatctgatctgtttttttttgggaatctcag---------------------
|| |||||||||||||| || || || ||||| || || || || || |||||||| |||||||| ||||| ||||| || || |||||||||||||| || | | || ||| ||| | | ||||||||||| | | || || || ||||| | | | |||
CCAGGACATTCAGTTCTTCGACACCGAGGTTCGGACATCCGACGTGGTTTTCGCCATCAACACCGATGCTGTCATGGTCCAGGATGCCATTAGTGAGAAGgtgcagtgccaaattcaacaagttccttttttttttgtttctgttactagatttggactagtttttctca--attttcatttttttatggttcttgtgcag
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G20530.1 (Glycine max), 5'ss of exon 3
TCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgtaagaatcttcaaattcttagtctttttgtttcttcttccttatctgatctgtttttttttgggaatctcag-----------------------------
|| |||||||| |||||||| || || ||| | || || |||||||| || ||||| ||||| || ||||||||||| ||||| |||||||| ||||| || ||| || ||| | || |||| | || || | | |||| | ||| ||| || |||
CCAGGACATTCAATTCTTTGACACCGAGGTTAGGACATCTGATGTTGTTTTTGCCATCAACACTGATGCTGTTATGGTACAAGATGCCATTAGCGAGAAGgt--gaagctcaaaaacatgagcctttgttgtttttttgcattatgtagtctcatttaagagactaacctctcccaacagtcaatcgagtcgagtctttgat
upper sequence: AT2G36910.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G36820.1 (Glycine max), 5'ss of exon 3
TCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgta-------agaatcttcaaattc--ttagtctttttgtttcttcttccttatctgatctgtttttttttgggaatctcag----------------------
|| |||||||||||||| || || || ||| | || || || ||||| ||||| || |||||||| ||||| ||||| || || |||||||||||||| || | | || ||| ||| | | ||| |||| || | | | | | ||||||||| | |||
CCAGGACATTCAGTTCTTCGACACCGAGGTTAGGACATCCGACGTTGTTTTCGCAATCAACACCGATGCTGTCATGGTCCAGGATGCCATTAGTGAGAAGgtgcagtgccaaattcaacaagttcattctttgtttctgttactggatttggactagtttttttttttttttcatttttcatttttttgatggttcttgtgcagMapped 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|116456352|gb|EG498944.1|EG498944EST: TCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAA CTTGGTAATTTCATCCATTACATGGCGACTTTTGTTTCTGGATTCATCGTG
genomic: TCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgtaagaatct ... ggaatctcagCTTGGTAATTTCATCCATTACATGGCGACTTTTGTTTCTGGATTCATCGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAAGACATTCAGTTCTTTGATACAGAAGTTCGAACTTCAGATGTTGTCTTCGCCATTAACACCGACGCTGTTATGGTTCAAGACGCCATTAGTGAGAAAgtaagaatcttcaaattcttagtctttttgtttcttcttccttatctgatctgtttttttttgggaatctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT