Sequence
atgc intronic sequence ATGC exonic sequence...ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G10950.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------------------ataa------ttattcttccaagaatctaccaaagttctatattccatct-cttcaagatttctgt----tcaagctttataagccttctgagagtt-------tgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
|||| || ||| | | | |||||| || | | || | ||| || | | | | | |||| ||| || || | ||| | | |||||||| |||||||||||||| || ||||||||||||||||||||| | || || ||||| |||||||||||||||||||| || ||||||||||||||||
gtaatctttgttcgaaccaacattactttttatgtcttttgctggacagtttttgtgctataatttactttgctctgtggtggttttgacaaagtggtagactttattttctttaaaactctcgaggaattgaaatttacaagaaaactaagttctgctgcaaccttccatgttcagATCCATTGGTTCTCCATCTTCAATTCGTTCATGATGGTTATTTTCTTGACTGGATTGGTATCAATGATATTGATGAGGACGCTGAGAAATGATTATGCGA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 3'ss of exon 6
---------------------------------------------------------------------------ataattattcttccaagaatctaccaa-agttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
| || | | || | | | || || | || || |||| || ||||||| || | | | || | ||| | | || ||||| || ||||||||||| || || || ||||||||||||||||||||||| |||||||| ||||||||||||||| |||| | |||||||| ||||| |
gtaatattttcccactccaaagaaaaaaaaactatgcgtaacatgcagctctcagcttgcttacttatgtgaaagagaaaaaatgttaattgtaacaacagggagctgaatcgtcttgttctttttgaaagttgttcaaaggttctgacttctatgcaaatttctaatgtt--cagATTCATTGGTTCTCCATTTTCAATTCTTTCATGATGGTTATTTTCCTCACTGGTTTGGTTTCAATGATATTGATGCGGACATTGAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------------------ataattattcttcca-agaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
| | | ||||| | || | | | || || || || || ||| || | | | | || | | || || | ||||||||| |||||||| ||||| || || |||||||||||||| || ||||| || | || |||||||| |||||| | ||||| |||||||| ||||| |
gtaagaactcagtttctgcaattaaagcctggttctgcaccttggttcttatgtattttgttgccaattttccacataaaaaattatgccttgattctcaatttcccatgtatatcttgcagcatttcctctgaccacagataatccatt-ttatggcagATCCATTGGTTCTCAATCTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGGCTAGTGTCAATGATTTTGATGCGCACTCTAAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G026231_T01 (Zea mays), 3'ss of exon 6
---ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagct--ttataagccttctgagagtttgttctt--------tttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| || | || || | | | || ||||| ||| || ||| || | || ||| || || | | ||||| | ||| ||||| |||||||||||||| || ||||| |||||||||||||||||||| || |||||||| || |||||||||||| ||||| | |||||||||||||| |
gtgatactt-tgtttgcagacaaccagaaactttctagtttctattcagctgtatcttcccttttaactaactattagaaatcctaagctctgttcatatttctcattttcagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAATGATTATGCCA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G420310_T01 (Zea mays), 3'ss of exon 6
---ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagct--ttataagccttctgagagtttgttctt--------tttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| || | | | || | || || | ||| ||| | ||| || | || ||| || || | | ||||| | ||| ||||| |||||||||||||| || ||||| |||||||||||||||||||| || |||||||| || |||||||||||| ||||| | ||||| |||||||| |
gtgatactttgtttgtagacaaccgac-aacttcctagtttctgttcagctgtaccttcccttttaactagctattagaagtcctaagctctgttcatatttctcatttccagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAACGATTATGCCA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G087212_T01 (Zea mays), 3'ss of exon 6
ataattattcttccaagaatctaccaaagttctatattccatct-cttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
| | || | | | | | || | ||| | | | | || | | | | ||| ||| |||| ||| ||| | | |||| || |||||||||||||| || || |||||||||||||||||| | || ||||| || |||||||||||||||||||| || |||||||||||||| |
acactt-tgccactttggtctttcctcggctctgactaatgtggaccttgctatctgtctgaagtaattacaagatggctgacccttttttccatgtttagATTCATTGGTTCTCCATCTTCAATTCATTCATGATGGTTATTTTCTTGACTGGTTTAGTGTCAATGATATTGATGAGGACACTAAGAAATGATTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G165631_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------------------ata-attattcttccaagaatctaccaa-agttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| | | | || | | ||| || | | | ||| | | |||| ||| || | | |||| ||| || | |||||||| || |||||||| || || || || |||||||||||||| || ||||| || | || ||||||||| ||||| ||||||| |||||||||||||| |
gtaatataggtatatatttttgcaattaaggagatctttgcagcttggctcctcgtaattacaatacagaaccagtataattacttcccattagctgcgttctacatgtttgaaagagcctgaatcatatcttcttaat-ttctagttatttcttgtacttgcagATTCATTGGTTCTCAATTTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGACTAGTGTCAATGATACTGATGCGGACTCTAAGAAATGATTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
----------------------ataattattcttccaagaatctaccaaagttctatat-tccatctcttcaagatttctgttcaagcttta----taagccttctgagagtttgttctttttgc----agATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| | | | | | || | |||| | | |||| | | | || |||| | | || || || |||||| | ||| |||| || ||||||||||| |||||||| ||||||||||| || ||||| || |||||||| ||||||||||||||| | ||||| |||||||| ||||| |
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttgg--tcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 6
----------------------ataattattcttccaagaatctaccaaagttctatat-tccatctcttcaagatttctgttcaagctttat----aagccttctgagagtttgttctttttgc----agATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| | | | | | || | |||| | | |||| | | | || | || | | || || || |||||| | ||| |||| || ||||||||||| |||||||| ||||||||||| || ||||| || || ||||| ||||||||||||||| | ||||| |||||||| ||||| |
gtacaactttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttgg--tcctaccatatctctgtcactgagtattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 6
--------------------ataattattct---tccaagaatctaccaaagtt--ctatattccatctcttca------agatttctgttcaagctttat----aagccttctgagagt-ttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
|| |||| | | |||| | ||| || | | | | |||| | | || | ||| | | ||| || || || |||||| || |||| |||||||||||||| ||||| || || |||||||| || ||||| || || ||||| ||||||||||| ||| | || | |||||||| ||||| |
gtgaaaatcattgctgctagatttgtattttagattgaagaggtgtttattgttggttacctgctacgtgttcattcatgtggatcctatcttagccatgtcactgagcgaactttgatcatttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACGTTGAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
-----------------------ataattattcttccaagaatctaccaaagtt--ctatattccatctcttcaag-atttctgttcaagctttataagccttctgagag---tttg-------ttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| | | |||| | ||| || | | || | |||| || | | | | ||| | ||||||| |||| |||||| || |||| |||||||||||||| ||||| || || |||||||| || ||||| || || ||||| ||||||||||| ||| | || | |||||||| ||||| |
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 6
ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagcctt-ctgagagtttgttctt---tttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
||| ||| | | | | | || | ||| ||| || | || | | | || | | | || || | |||| | ||||||| || ||||||||||| ||||| || |||||||||||||| |||||||| |||||||| |||||||| || ||| | || || |||||||| ||||| |
ttaaggattgt-cttatattttatatgaattcaataatct---tattttgttcatttaataaacttccacatattgagttgtgaatgcattctgcaatgtgcagATTCATTGGTTCTCCATTTTTAATTCTTTCATGATGGTTATCTTCCTCACTGGTTTGGTGTCAATGATCTTAATGCGAACCCTTAGAAATGACTATGCTA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 6
--ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagccttctgag--agtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
|| ||||| ||| ||| || || | | || || | ||| | || | | |||| || || || ||| |||||||||| |||||||| ||||| || || ||||||||||||||||||||||| || ||||| || |||||||| ||| | ||||| ||||||||||||| |
tgctaggaggaattccattaatga---aaaatttcatgctacttca-tttgatattgtttttgtattccagtgctttttctaagcaagctttaacttggtgcagATCCATTGGTTCTCAATCTTCAATTCATTCATGATGGTTATTTTCCTCACTGGATTGGTGTCTATGATATTAATGCGAACTCTTCGAAATGATTATGCCA
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S438_26V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------------------------------------ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
| | || |||| | | || || | | | | || ||| | || || || | | | | ||||| || |||||||| ||||| ||||||||||||||||| || || || || || |||| || ||||| ||||| | || ||| | || ||||||||||
gtgggtgtgaggagggagcggagggctgagttgcaagatttgtgtagcgagtgtgggtggagacgggagcttgaagctacatgcgagttagtggtgtgttggaggttcatgggatggtgaatgggacga-gtcgcgagtttgacgtgtgggggtgtttggtttgtggttgatg------ttgggtggcggccgcgatgacagATACATTGGTTCTCTATCTTCAACTCGTTCATGATGGTGATATTTCTGACGGGGCTGGTATCGATGATTCTGATGCGCACCCTCCGCAACGATTATGCGAMapped 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|124744897|gb|EH836059.1|EH836059EST: TTATCCGTTCTTTGAACACCAG ATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACC
genomic: TTATCCGTTCTTTGAACACCAGgtaactttta ... ctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
tttgttctttttgc CT-rich tract
tttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataattattcttccaagaatctaccaaagttctatattccatctcttcaagatttctgttcaagctttataagccttctgagagtttgttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA
- - - - - - -caagaat
- - - - - - - - - - -taccaaa
- - - - - - - - - - - - - - - - - - - -catctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtttgt