Sequence
atgc intronic sequence ATGC exonic sequence...tccttgacttgttttgttccttgtgttgactctcccttcttgttttagcaataatcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G67580.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA11G37270.1 (Glycine max), 3'ss of exon 1
tccttgacttgttttgttccttgtgttgactctccct----tcttgttttagcaata-atcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
| || || ||||| || | || | || | | | | ||||| | | || | | | || | | | | | ||| |||||| ||||||||||| |||| ||||||||||||| |||||||||||||||||||| ||||| ||||| ||||| || ||||| |||| || |
actttattttactttgtattttagttagaatgtctcagacaccattcccttgcaatggaagagatcatttag--ttag---taatggttatctatttgttttcagGGCTCCTGAACTTCTTCTGGGGACAAAACAATATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCTCTA
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G10810.1 (Glycine max), 3'ss of exon 1
tccttgacttgttttgttcct-tgtgttgactc-tcccttcttgttttagcaataatcacttcctccgggaccaagcccaacgactgcatttgt-ttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
|||| || |||| | | | ||| ||| | ||| ||||| | ||| | | | || || | || | | | |||| |||||||||||||||||| |||| |||||||| ||||| |||||||||||||||||||| | || ||||| ||||| || ||||| |||| ||| ||
-tcttgttactttaggttcatatataagtacttatccatcctttttttatgcagcatcgatgcttttaca--tgagtgtaatggttgtctatatatttttcagGGCACCTGAACTTCTTCTGGGGGCAAAACAGTATTCAACAGCCATTGACATGTGGTCTTTAGGTTGTATAATGGCTGAGCTATTGTCTAAGGAACCACTG
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA05G27820.1 (Glycine max), 3'ss of exon 4
---------tccttgacttgttttgttccttgtgttgactctcccttcttgttttagcaataatcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
|||| | || |||| | | || || | || | | | ||| | || || | || || | ||| | | | |||| ||||||||||||||||| |||| |||||||| ||||| |||||||||||||||||||| | || ||||| ||||| || ||||| |||| |||| |
gttctacttgccttcattttacctgtttatcataatgtctttgactaaattctcttgcagtgatgtgatcattta--------cctaatggctgtctatatgtttc-agGGCACCTGAACTTCTTCTGGGGGCAAAACAGTATTCAACAGCCATTGACATGTGGTCTTTAGGTTGTATAATGGCTGAGCTATTGTCTAAGGAGCCACTA
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G01230.1 (Glycine max), 3'ss of exon 3
---tccttgacttgttttgttccttgtgttgactctcccttcttgttttagcaata-atcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
| || || | ||| || || ||| | || | | ||||| | | || | | || | ||||||||||| ||||| ||||||||||| | || ||||||| ||||| |||||||||||||||||||| ||||| ||||| ||||| || ||||| |||| ||| ||
ttgactttattttactatgtattttagaatgtctcagacatcattcccttgcaatggaagagatcatttag--ttaataatggttatc-tatttgtttttc-agGGCTCCTGAACTTCTTCTCGGGACAAAACAGTATTCAACAGCCATTGACATGTGGTCTCTGGGTTGTATAATGGCTGAGCTATTGTCCAAGGAACCACTG
upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 1
tccttgacttgttttgttccttgtgttgactctcccttcttg-ttttagcaataatcac--ttcctccgggaccaagcccaacg-----actgcatttgtttttc-----cagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
|||| ||| || || | || | | ||||| | | | | || |||| || ||||| | || | || | ||| |||||| || |||||| | ||||||||||| ||||| || ||||| |||||||||||||| | || || || ||||| ||||| ||| |||| ||| ||
-------------ttgtccctggtattagttgtcatgtttgaattttaagtgttgtgatgatgtctatgggaagaaatacaacgtgcttaatgtacttctatttaatttacagGGCGCCAGAACTTTTGTTGGGAGCAAAGCAATACTCAACAGCAATTGACATGTGGTCGTTAGGTTGCATAATGGCTGAACTGTTATCAAAGGAACCACTGMapped 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|164102281|gb|ES200216.1|ES200216EST: GGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAG GGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACA
genomic: GGCAGCCCGCTCAAGCCTTATACTCATCTGGTTGTTACGCTTTGGTACAGgtaaagtgcg ... gtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcaataatcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
tttgtttttcc CT-rich tract
atttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccttgacttgttttgttccttgtgttgactctcccttcttgttttagcaataatcacttcctccgggaccaagcccaacgactgcatttgtttttccagGGCACCTGAACTTCTCTTGGGAGCAAAACAATATTCTACAGCCATTGACATGTGGTCACTGGGCTGTATCATGGCAGAACTATTAATGAAGGCGCCATTG
- - - - -tgttttg
- - - - - - - - - - - - - - actctcc
- - - - - - - - - - - - - - - - - - - - - - - -gcaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaagcc