Sequence
atgc intronic sequence ATGC exonic sequenceGATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13445.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 5'ss of exon 6
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctc-tctcatattggcgtgtggttag
|| |||||||||||||| ||||| |||||||||||||| ||||| || || || || || || ||||| || ||||| | ||||||||||||||| ||| | ||| | ||| | | | |||| | | || | | | | || ||| | | ||| | ||| |
GACTTCAAGATTCAGAACATTGTTGGTTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGTgtaagttgaatc--cttgcatgtttttt---taggatatttctttcacatatgtta-tgctattctcatgtcttgtgccttttgtcttccag--------------
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||||||||||||||| ||||| || ||||||||||| ||||| || || || || || || ||||| || ||||| | ||||||||||||||| ||| | || | ||| ||||| | ||| | | ||||| || ||| || | ||| | | | || |
GATTTCAAGATTCAGAACATTGTTGGCTCTTGTGATGTTAAATTTCCAATCAGGCTGGAGGGACTTGCATATTCTCATGGTGCTTTCTCAAGTgtaagttgagtccttgcatgccttt------ttaggac--gcctttcacatttgttatgttgttcttatgtcctgtgccttt-tgtgttaacag-----------
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os10g29660.2 (Oryza sativa), 5'ss of exon 4
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacattta-gtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag-------------------------------------------------------
||||||||||| ||||| ||||| ||||| |||||||||||||| ||||| | || || || |||||||| ||||| | || ||||| ||||| ||| | ||||| |||| | ||| || | | | || | | |||||| | || ||| |||| | |||| ||
GATTTCAAGATCCAGAACATTGTTGGTTCATGTGATGTCAAATTTCCTATTCGCCTGGAGGGCCTTGCTTATTCTCATGGCGCATTCTCTAGTgtaagttgatt--acttacttttttacattgtctcagaatgcatcctttgaatttccat-tgaaactgatgccagttg--tctgataaatatcagtgtgtcatttacccatatttcatcatgcatgtcattattttgactgttcacttgcttaatttgcag
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G161418_T05 (Zea mays), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||| ||||||||||||||||| || |||||||||||||| || || || || ||||| || ||||| || ||||| | ||| ||||||||||| || | | | |||| | || | |||||| | | || | ||| | | | | | |||| ||| | | |
GATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTCAAGTTTCCAATTAGGCTTGAGGGCCTTGCATATTCTCATGGTGCCTTCTCAAGTgtatgt--ccaaggatggtttattttatcaccacagtaattcttttaccctttttgtc--tgcattcttggataatgacatttt-tcat-ttgttttatag----
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G149238_T04 (Zea mays), 5'ss of exon 6
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
|| || ||||||||||||||||| || ||||||||||| || || || || || ||||| || ||||| || ||||| | ||| ||||||||||| || | | || |||| | ||| ||||| | || || | | ||| | | |||| ||| | |
GACTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTTCCAATTAGGCTTGAGGGCCTTGCCTATTCTCATGGTGCCTTCTCAAGTgtatgtccaatga--ttgcttattttggcatcacaattt--tttttacctttttttttgtctcccttcttggaatttgacatttttcat-ttgttttacag----
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA09G41330.1 (Glycine max), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtg-atcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||| ||||||||||| ||||| || |||||||||||||| ||||| || ||||||| |||||||| || || || | ||||||||||||||| |||| | || ||| | | || || || ||| | || |||| | | | | | | ||| ||| | | ||||
GATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGTgtaagtgtgaagtgcaataatcatctgtttttcctgg--tgaatttcatgga--aaaatggtcctcacaaattcctgccctagtaatcagtcctacatatggtc--
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA19G28780.1 (Glycine max), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtg-atcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||| ||||||||||| ||||| || |||||||||||||| ||||| || ||||||| |||||||| || || || ||||||||||||||| |||| | || ||| | | || || || ||| | || |||| | | | | | | ||| ||| | ||||
GATTTTAAGATTCAGAACATTGTTGGCTCTTGTGATGTCAAGTTCCCCATTCGACTTGAGGGTCTTGCCTATTCCCATAGTGCTTTCTCAAGTgtaagtgtgaaatgcaataatcatctgtttttcctgg--tgaatttcatgga--aaaatggtcctcacaaattcctgccctagtaatcagtcctatatatggtc--
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA18G44460.1 (Glycine max), 5'ss of exon 6
-GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttata-catttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||| ||||||||||||||||| || ||||||||||| || ||||| || |||| || |||||||| || || || | ||||||||||||||| |||| | | ||||| || || | | | || | | ||||| | | | | || | | ||| | ||| | ||||
GGATTTTAAGATTCAGAATATTGTTGGCTCTTGTGATGTAAAGTTCCCCATTCGACTGGAGGGTCTTGCCTATTCCCATGGTGCTTTCTCAAGtgtaagtg-tgaaatgttataatcttctgttcttcctggtgaatttcttgg---aaaaatggtctacaaattcctgt--cctagttatcagtactatatatggtcc-
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA16G25450.3 (Glycine max), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttag--tagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
|||||||| |||||||| ||||| || |||||||||||||| ||||| ||| | || || |||||||| || || || | ||||||||||||||| ||| | | || | || | ||| | |||||||| | || | |||| | | || | | || || || || | |
GATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagttttaattttttgggaaaataaattggtccctggt-gacttttatatcagaatattttgttttcacaatcaatgtttggctatc---ctgatgtttagg---
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA03G04500.1 (Glycine max), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtga-----tcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
|||||||| |||||||| ||||| || |||||||||||||| ||||| ||| | || || |||||||| || || || | ||||||||||||||| ||| | | || | | | || ||| ||| | | | | ||| || || | || || || || || || |||
GATTTCAAAATTCAGAACATTGTCGGCTCTTGTGATGTCAAGTTCCCCATACGGCTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagttagttattttttgggaaaataattcatagggttggattggttactggtgatttttacattaaatt------tttttttgctttcaca-atcaatgtttggc---
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA02G06370.1 (Glycine max), 5'ss of exon 3
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctc------tctctcatattggcgtgtggttag
|||||||| ||||||| ||||| || |||||||||||||| ||||| ||| | || || |||||||| || || || | ||||||||||||||| ||| | ||| || || ||| | | | | ||| | | || ||| || | ||| || | | | | || | | |
GATTTCAAAATTCAGATCATTGTCGGCTCTTGTGATGTCAAGTTCCCCATATG-CTGGAGGGTCTTGCATATTCCCATGGTGCTTTCTCAAGTgtaagt--ttttattttttattttttg-----ggaaaataattcataggattggattggtcc--ctggtgacttttatatcaaaatattttttgttttcacaatcgatg--
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 5'ss of exon 7
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
||||| ||||||||||| || || || || |||||||| |||||||| ||||| |||||||| ||||| || ||||| | ||| || || || || |||||| | | | | | | | | | |||| |||||| || | || | || | | | | || | |
GATTTTAAGATTCAGAACATAGTTGGCTCCTGTGATGTTAAATTCCCCATAAGGCTTGAAGGCCTTGCATATTCTCATGGTGCCTTTTCCAGCgtaagtgatgacattgttttcggagttcaattatttatttatttttctg--taaaaatgtgaacc--atacttgggaagtcatgtttaaactaaggttggaaca-
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S13_321V6.1 (Physcomitrella patens), 5'ss of exon 6
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggacc--gacttttagagataaaaacgttgtgctgatggccattac-ctctctctcatattggcgtgtggttag
||||| || |||||||||||||| ||||| ||||| |||||||||||||| |||| |||||| | |||||| |||||| | || ||||||||||| | ||| | | | | | | || | | | ||| | | |||| ||| | | | | | || ||
GATTTTAAAATTCAGAATATTGTTGGTTCATGTGACGTCAAATTCCCTATCCGACTCGAAGGTTTAGCTTACGCTCACGGTCACTTTTCAAGTgtgagcatctctggcttgcttacatgatctacgggaaatatgaacgcttgtgtgaaatgtttcgacacgatgatatttatgcgcccaaacccactga-atg-------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|125190928|gb|EL205882.1|EL205882EST: CTTACTCTCACGCTGCTTTCTCAAGT TATGAGCCCGAGCTCTTCCCAGGGCTGATTTATAGGATGAAAGTACCCAAA
genomic: CTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatc ... gtgtggttagTATGAGCCCGAGCTCTTCCCAGGGCTGATTTATAGGATGAAAGT-CCCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATTTCAAGATTCAGAATATTGTAGGTTCTTGTGATGTCAAATTCCCTATAAGACTTGAAGGTCTTGCTTACTCTCACGCTGCTTTCTCAAGTgtgagtgatcttaacttatacatttagtagtcaaggaccgacttttagagataaaaacgttgtgctgatggccattacctctctctcatattggcgtgtggttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT