Sequence
atgc intronic sequence ATGC exonic sequenceGAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13670.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 11
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaat--acttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|||||||| ||||| ||||||||||||||||| ||||||| ||||||||| || || | ||||| ||||| | || || |||||||||||| | | | ||||| ||| ||| || | ||| | | ||| || | | | | ||| | || |||||| | || | |
GAATGGATCATGGAACAGTGGGAGAAGAACTATTACATTACTTCTATTGCAGGGGCTAATAATGGGAGCTCTCTCGTGGTGATGTCAAAAGgtttgttttttaaaaatgaactagttttggaatttggtctttattgctgcaattt--tactttttatacttggtgttttggtcatgttttgggtttatctac---------
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 13
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaa-tacttttgaacactt-tcgtcatta-tggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
||||||| ||||| |||||||| |||||||| ||||||| ||||||||| || || | ||||| ||||| | || || |||||||||||| | | | ||||| || ||||| || | || | ||| || ||||| || | | | || | | || |||||| | || | |
-AATGGATCATGGAACAGTGGGAAAAGAACTATTACATTACTTCTATTGCAGGGGCTAATAATGGGAGCTCTCTTGTGGTGATGTCAAAAGGtttgttttttaaaaatgaactagttttggactttggtctttattgctgagattttgctt-tttatactttaggtgttttggtcatgttttgggtttatcta----------
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA10G44050.1 (Glycine max), 5'ss of exon 13
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|||||||| |||||||||||||| || |||| ||||||| ||||||||| || | |||||| ||||| | || || |||||||||||| | ||| | || | ||| | | | || ||| | || | | | || ||| | || | ||| |||||| | |||
GAATGGATAATGGAGCAGTGGGATAAAAACTTTTACATTACTTCTATTGCAGGGAGCAACAATGGCAGCTCTCTTGTGGTGATGTCAAAAGgtttgattactaa--aagagtcactttttgctgtggtgaaatgatgaatcgatcttattattt---ttcttggttgat---gaatcatgttatcaaataccgttggaa-
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA20G38770.1 (Glycine max), 5'ss of exon 13
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
||||||||||||||||||||||| || |||| ||||| | ||||||||| || | |||||| ||||| | || || |||||||||||| | || | || | ||| | | | || ||| | | || | | | || ||| | || | ||| |||||| | |||
GAATGGATTATGGAGCAGTGGGATAAAAACTTTTACATCACTTCTATTGCAGGGAGCAACAATGGCAGCTCTCTTGTGGTGATGTCAAAAGgtttgattgctaa--aggagtcactttttgctgtggtgaaatgatgaattggttttattattt---ttcatggttgat---gaatcatgttatcaaatatcattggaa-
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 13
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgt--atctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|||||||||||||| || ||||||| ||||| || || ||||| ||||||||||| | ||||||||| ||| | ||||| ||||| |||||| ||| | || | | ||| | || | ||| || || | || | || | ||| ||| ||| | ||||| | |
GAATGGATTATGGAACAATGGGAGAGGAACTTTTATATCAGTTCCATTGCTGGTGCTAACAATGGAAGTTCCCTTGTTGTGATGTCCAAAGgttggtctttatttgtttactttgtgattggatggattaacctctattgttttcaatta---taaaaaaacataatttagattattcttgcta-------gaatttttag-
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 13
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatg-gtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|| ||||| ||||| |||||||| ||||| | ||| || ||| | || |||||||||| || ||||||||||| || |||||||| |||||||| | | | | || | |||||| || | | ||| ||| | | | | |||| | | | | | || |||| | || ||||
GAGTGGATCATGGAACAGTGGGAAAAGAATTTCTATATCAGTGCCATCGCTGGTGCAAATAACGGAAGCTCCTTGGTCGTCATGTCTAAAGgtatttcacccgatgttacatttagattaacactatcatt-tcatgcatatgtacttcaattttttatttttatcatgct----gcttaatttttgta-gatttat----
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 11
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|| ||||| ||||| || |||||||| |||| |||||||||| | ||||| || || | ||| || ||||| | |||||||||||||||||||| | || || ||| | || || | | | | ||| |
GAGTGGATCATGGAACAATGGGAGAAAAACTTCTACATTAGTGCCATTGCAGGAGCCAACAACGGCAGCTCGCTGGTTGTCATGTCAAAAGgtattgtcgctgttattgatggccactgg-cattgttgctgacgcgtgattcccccgcag-------------------------------------------------
upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: EFJ38433 (Selaginella moellendorffii), 5'ss of exon 11
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
|| ||||| ||||| || |||||||| |||| |||||||||| | ||||| || || | ||| || ||||| | |||||||||||||||||||| | || || ||| | || || | ||| | | ||| | |
GAGTGGATCATGGAACAATGGGAGAAAAACTTCTACATTAGTGCCATTGCAGGAGCCAACAACGGCAGCTCGCTGGTTGTCATGTCAAAAGgtattgtcgctgttattgatggccactgg-cattgtcgctgacgcg-tgtttcccccgcag------------------------------------------------Mapped 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|86059947|gb|DR355704.1|DR355704EST: TTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAG GTACGCAGTATACACAGCAGTCTTACAAAGTAAGCGATTCATTCCCGTTCA
genomic: TTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacac ... aattatgaagGTACGCAGTATACACAGCAGTCTTACAAAGTAAGCGATTCATTCCCGTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATGGATTATGGAGCAGTGGGAGAAGAACTACTACATTAGTTCTATTGCTGGTGCAAGCAATGGAAGCTCCTTAGTTGTCATGTCAAAAGgtatctacacttttcatgaatacttttgaacactttcgtcattatggtattttactagtctctgaatttgtggcttattctatgtttggttttcaaatgaattatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG