Sequence
atgc intronic sequence ATGC exonic sequenceACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G32790.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 5'ss of exon 6
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtg-actctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
| || ||||||||||||||||||||||| ||||| ||||| || ||||| ||||||||||| || | | |||| || | ||| ||| || | |||| || ||| || ||| || ||
TCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAGgtatgctacaatttgcttgtactctgtttttcgttatcctttatgct-catgtttctttggcatttg---atgcatttgatacag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G044246_T01 (Zea mays), 5'ss of exon 2
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag--------------------------------------------------------------------------------
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||||||||||||||| | || | | || || | | ||| | | | || || | | | | | | || |
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATAGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAG-
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G044246_T02 (Zea mays), 5'ss of exon 6
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||||||||||||||| | || | | || || | ||| | | || || ||| || ||| | ||| | | ||
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATAGACAAGAAGgtttggtacctgcactcatgctactacc--------actaggtat----tcattctatcatggttctgttttaat-acacacag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G457231_T01 (Zea mays), 5'ss of exon 8
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagt-atctccctttcacacttgtgtataaattgcttatag------------------------------------------------------------------------------------------
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||||||| | || | | || || | || | | | || | || ||| | || || | | | |||
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGGTTTGGTACCTGCACTCATGCTACTACCACTAGgtattcattctgtcatgattctattttaatacacgtaggtcactcaagcatatctaaacttattctttgagtcaatatgtggtgaggttggtcgttctttactccaaacacaatctcccttctgtacaactaaaagtttgcag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G069102_T01 (Zea mays), 5'ss of exon 6
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||||||| | | | | || || | || | | || || ||| || ||| | ||| | ||
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGgtttggtacctacactcatgctactacc---actatgtat---------tcattctgtcatggttctgttttaat-acacgcag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G454261_T01 (Zea mays), 5'ss of exon 2
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||||||| | || || | || || | || | | || | || ||| | | |||
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGgtttggtacctgcattcatgctactaccactagttatttattgtgtcatggttctgtttta-atacacgtag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G123866_T01 (Zea mays), 5'ss of exon 11
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||||||| | || | | || || | || | | | || | || ||| | | | |
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGgtttggtacctgcactcatgctactaccactaggtattcattctgtcatggttctgtttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G166091_T01 (Zea mays), 5'ss of exon 8
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||||||| | |||| | || || | || | | | || | || ||| | | | |
TCTGACGATGAACGTGAAATGTGTGCAAGCACTATCTACTGCACAAACATTGACAAGAAGgtttggtacctgaactcatgctactaccactaggtattcattctgtcatgattctgtttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G310936_T01 (Zea mays), 5'ss of exon 1
---------------------------------ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaact-taaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
||||| ||||| ||||| ||||||||||| ||||||||| | || ||||| ||||||||||| | || || | || || || || | | | || | || ||| | | | |
ATGACATATATACTTATTTTCTGTGCTCTGCAGACTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACCGCACAAACATTGACAAGAAGgtttggtacctgcattcatgctactacctgtagttattcattctgtcatggttctgtttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G014573_T01 (Zea mays), 5'ss of exon 4
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| || |||||||| || ||||| ||||||||||| | || | | || || | ||| | | | ||| | || ||| | | | |
CCTGACGATGAACGTGAAATGTGTGCAAGGACAATCTACTGCACAAACATTGACAAGAAGgtttggtacctgcactcatgctactaccattaggtattcattatgtcatggttctatttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G376619_T01 (Zea mays), 5'ss of exon 7
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| |||||||||| || ||||| ||||||||||| | || | | || || | ||| | | | || | || ||| | | | |
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTACACAAACATTGACAAGAAGgtttggtacctgcactcatgctactaccattaggtattcattctgtcatggttctgtttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G349794_T01 (Zea mays), 5'ss of exon 7
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||||| ||| | || | | || || | ||| | | | ||| | || ||| | | | |
TCTGACGATGAACGTGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGATGgtttggtacctgcactcatgctactaccattaggtattcattatgtcatggttctgtttta-atacacgcag-------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G398795_T01 (Zea mays), 5'ss of exon 8
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaac-ttaaccgtacttgatgaagta-tctccctttcacacttgtgtataaattgcttatag
|| | ||||| | ||| ||||||||||| ||||||||||| || ||||| ||||||||||| | || | | || || | || | | | ||| | | | ||| | || ||
TCTAACGATGAACATGAAATGTGTGCAAGGACTATCTACTGCACAAACATTGACAAGAAGgtttggtacctgcactcatgctactaccactaggtattcattatgtcatggttttgttttaatacatgcag---------------
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G324221_T03 (Zea mays), 5'ss of exon 7
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
|||| ||||| |||| |||||||| || ||||||||||| || ||||| ||||||||||| | | | | || | || ||| | | || || ||| || ||| | ||| | ||
TCTGACGATGAATGTGAAATGTGTGCTAGGACTATCTACTGCACAAACATTGACAAGAAGgt--------ttggtacctacactcatgctactaccactaggtat----tcattctgtcatggttctgttttaat-acacgcag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv02s0025g02740.t01 (Vitis vinifera), 5'ss of exon 7
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaacc-------gtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag-------
| ||||||||| || ||||||||||||||||| || |||||||| || || || |||||||| | | || || || | || | | | ||| | | | | | ||||| | ||| | ||| || |
AATGAAGATGAACGCGAGATGTGTGCAAGAACAATTTACTGTACAAATATTGATAAGAAGgtactttttatgtttctttatattgaatgtgctccggtgtaggactaggaaacactttttcttttcaaatcaatgttgtatttgtttgtttaatgcag
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 5'ss of exon 6
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctc--ttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcac-acttgtgt-------ataaattgcttatag-------
|||||||||||||||| ||||||||| | || ||||||||||| || || ||||||||||||| | ||| | || | | | | ||||| | ||| ||| || | || | |||| ||||| |
TCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAGgtgaagtggagtgaaatagaatttcgttgttctatgctgac-gatgagatccatccgttttactgcctgcttttttgcgataagttgctcttctctttgtg
upper sequence: AT1G32790.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S196_50V6.1 (Physcomitrella patens), 5'ss of exon 7
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgac-tctcttgaatca---tttctcttaacttaaccgt-acttgatgaagt--atctccctttcacacttgtgtataaattgcttatag------------------------------------------------------------------------------------------------------------
||||||| |||||||| ||||||||| | || ||||||||||| || || || |||||||||| | |||| | |||| | || | | | || || || | | | | || ||| ||| | | |
TCTGAAGACGAGCGTGAAATGTGTGCACGTACCATCTACTGTACAAATATTGATAAGAAGgtgaagtggagtgaaatagactttcattcttctaggctgccaattagccctgttcatttactgtctaatctgttgtgaaaagttatggcatggttgtgtattcgttgtgccatggttcacgaggtggtgggaagttttcatgctagtaccacattgtaatgtatggccggggctctgagcgagcagtgacttgatgcagMapped 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|86081011|gb|DR376768.1|DR376768EST: AGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAG GTGACTCAATCAGACGTGAAGATCTTTTTTGAGTCCTTCTGCGGAGAG
genomic: AGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctct ... ttgcttatagGTGACTCAATCAGACGTGAAGATCTTTTTTGAGTCCTTCTGCGGAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGTACTAACATAGACAAGAAGgtgactctcttgaatcatttctcttaacttaaccgtacttgatgaagtatctccctttcacacttgtgtataaattgcttatag
- - - - - - - GAGATG
- - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG