Sequence
atgc intronic sequence ATGC exonic sequencegtggttttcttattcttgtttgccttcttttttacttgagtctttgcctgatttggagtgctgattcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTCCAAATGGCGGTTCCGACCTTAAGATCTACTGCCGGTCTGAAGAATTTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G01920.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G01920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G44800.1 (Glycine max), 3'ss of exon 3
----------------------------gtggttttcttattcttgtttgccttcttttttacttgagt-ctttgcctgatttggagtgctgattcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTCCAAATGGCGGTTCCGACCTTAAGATCTACTGCCGGTCTGAAGAATTTTA
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ctggcatcgtatagtaattaatcttcatggagtcattttgtttaagtacacacagtttttaatgtgtatgcattatcctcttccctgt-ttgttttttgcaGTTAAACAGTCCTGATCTGTTTGATATGTATTCTGCCGGGATTGTACTCCTGCAAATGGCAATACCAACCTTAAGGTCTCCAGCTGCTTTGAAGAATTTC-
upper sequence: AT5G01920.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G34620.1 (Glycine max), 3'ss of exon 3
----------------------gtggttttc----ttattct-tgtttgccttcttttttacttgagtctttgcctgatttggagtgctgattcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTCCAAATGGCGGTTCCGACCTTAAGATCTACTGCCGGTCTGAAGAATTTTA
|| || || ||| | | ||| ||| | ||| | || | ||| | ||| || ||||| ||||| || ||| |||||||||||||||| |||||||| || || || |||||||| | || | |||||| ||| |||| | | |||||||||| |
taatcacatactgactgaattaactattctccggtttgttccacatatacctattttgctcaggaagtgctaaagtggagttatgtgattattgttgcagTTAAACAGCCCTGATTTGTTTGATATGTATTCAGCTGGGATTGTACTCCTGCAAATGGCAATACCAAGCTTAAGGTCTCCTGCTGCTTTGAAGAATTTCAMapped 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|164139757|gb|ES005506.1|ES005506EST: CTTTGCTTTCCCCGATTCTCTGGCAG TTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTC
genomic: CTTTGCTTTCCCCGATTCTCTGGCAGgtggttttct ... attcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgccttcttttttacttgagtctttgcctgatttggagtgctgattcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTCCAAATGGCGGTTCCGACCTTAAGATCTACTGCCGGTCTGAAGAATTTTA
tgctgat putative branch site (score: 3)
ttcttac CT-rich tract
ttctttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggttttcttattcttgtttgccttcttttttacttgagtctttgcctgatttggagtgctgattcttacagTTGAACAGTCCGGATCTGTTTGATATGTATTCTGCTGGGATAGTGCTTCTCCAAATGGCGGTTCCGACCTTAAGATCTACTGCCGGTCTGAAGAATTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA