Sequence
atgc intronic sequence ATGC exonic sequenceGCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtacgtagcacaaaacagtgctagagctagtactgcgttgagaggtgtttgttgacattgctgatactgtactgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G65970.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G65970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os05g09050.1 (Oryza sativa), 5'ss of exon 4
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtacgtagcacaaaacagtgctagagctagtactgcgttgagaggtgtttgttgacattgctgatactgtactgtgcag---------------------------------
| ||||||||||| || || |||||||| ||||||||||| |||||| | || | || |||||||||||||| | || ||||| |||| | || || | | || | ||| | | ||| || | |||| | || |
GTTCATTTAGCTCCTGGCAGCAAGTTCGATTTCCAGAAGTACATCAAACGGTCTCTCGAGGACGATTTCAAGGTCATTGTCGGAATCAGgtgtgctgctaaatgctaatcacattctcatcttgcaatctgtcaatttttttcttggtactgaaccatcacgaattaagtatattcttgttggtctgaatgtttattgcag
upper sequence: AT5G65970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA01G36170.1 (Glycine max), 5'ss of exon 8
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtacg--tagcacaaaacagtgctaga--gctagtactgcgttg-agaggtgtttgttgacattgctgatactgtactgtgcag------------------------
| ||| | ||||| ||||| || || | ||||| |||||||||||||||||||| ||||| || ||||||||||| || ||| | ||||| || || |||| || | | | | | || | || || | | || | | | || || |
GTCCACCTGGCTCCTGGAAGTAAATTTAATTTCCAAAAGTATATCAAAAGATCATTAGAAGATGACTTCAAGGTGGTCGTGGGAGTTAGgtaaaactaacaagtaacaacagtaaaatgtatatgcaacattatattagtattatgtaaggtttttccttgtatattggaaatctgtgctaactatgttattgacag
upper sequence: AT5G65970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G32920.1 (Glycine max), 5'ss of exon 4
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgta-cgtagcacaaaaca------------gtgctagagctagtactgcgttgagaggtgtttg--ttgacat-tgctgatactgtactgt--gcag
| || | ||||| ||||| || || ||||||| ||||||||||||||||| ||||| || || |||||||| || |||||| | ||||| | | | ||| | || | | | | ||| | | ||||||| | | ||| | ||| |||
GTTCACCTGGCTCCTGGAAGTAAATTTAACTTCCAAAAGTATATCAAAAGATCCTTGGAGGATGACTTCAAGGTAGTTGTTGGAGTCAGgtaacactcttctacacatgcatctgtagcatcttatcatctatgatttttccaatggtatcttgtttgacatatattctcactattttgttgacag
upper sequence: AT5G65970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA16G21510.1 (Glycine max), 5'ss of exon 8
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtacgtagcacaaaacagtgc---tagagc-tagtactg-----cgttg----agaggtg--tttgttgacattgctgat-actgtactgt--gcag
| ||| | ||||| ||||| || || ||||||| ||||||||||||||||| ||||| || || |||||||| || |||||| | ||||| | | |||| | ||| | || || |||| || ||| || ||||||| || | ||| | ||| |||
GTCCACCTGGCTCCTGGAAGTAAATTTAACTTCCAAAAGTATATCAAAAGATCCTTGGAGGATGACTTCAAGGTAGTTGTTGGAGTCAGgtaacactcttttactcgtgcatttgtagcatcatattgtctatcgtttttccagtggtaacttgtttgacatacatgctcactatgttgttgacag
upper sequence: AT5G65970.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G09270.1 (Glycine max), 5'ss of exon 8
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtac-----gtagca-caaaacagtgc-----tagagctagtactgcgttgag--aggtgtttgttgacattgctgatac-tgtactgtgcag-----------
| ||| | ||||| ||||| || | | ||||| |||| ||||||||||||||| ||||| || ||||||||||| || ||| | ||||| ||| || || | | || | || || || | |||| ||| | || ||| | ||| || |
GTCCACCTGGCTCCTGGAAGTAAATATAATTTCCAAAAGTTTATCAAAAGATCATTAGAAGATGACTTCAAGGTGGTTGTGGGAGTCAGgtaacactagtaacaacagtaaaatgtatacgcaacattatatttgtattatgtaaggtttttccttctatatttgaaatgtgtgctaactatgttattgacagMapped 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|164074957|gb|ES208419.1|ES208419EST: TTTCAAGGTGGTAGTTGGAATAAG TCCTCTTTTGTGGGCATCATTTGTAA-TTTCCTACTTCTGAATGTTAATG
genomic: TTTCAAGGTGGTAGTTGGAATAAGgtacgtagca ... tactgtgcagTCCTCTTTTGTGGGCATCATTTGTAATTTTCCTACTTCTGAATGTTAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCCATTTAGCTCCAGGAAGAAAGTTCGACTTCCAGAAGTATATCAAAAGATCATTGGAAGACGATTTCAAGGTGGTAGTTGGAATAAGgtacgtagcacaaaacagtgctagagctagtactgcgttgagaggtgtttgttgacattgctgatactgtactgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA