Sequence
atgc intronic sequence ATGC exonic sequencegtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT
Basic information
species | Glycine max |
transcript | GLYMA18G02210.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
| | || | | | || || | || | | | || || | || | || | | || | | || | | ||||||||||||| || || || || |||||||| || ||||| |||||||| |||||||| ||||||||
---------------gtttgcaatttgtccatggattctt-ctgcagcagtatgccattaaaaaaaaacttagttttggattaaaacttgtcca-tgtatt-cttctgcagTATGTGCCGTATGTTGGAGACAGCAAGAGGGCAATGGACGAGTACACCTCAGAGATCTTCATGGGGGGTAAGAGCACCATCGTTCTGCACAACACCTGTG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G155242_T01 (Zea mays), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| | || | | ||||||| || | | | | | | | ||| | | | | || | |||||||||||||| ||||| || || |||||||| || ||||| |||||||| |||||||| ||||||||
-----------------------gtctgttagctga---tctttcacctcgttaaaagt-tgacatatgcaaggcagatttacattgaaacttgtcactcttttgttgcagTATGTGCCGTACGTGGGAGACAGCAAGAGGGCTATGGACGAGTACACCTCAGAGATCTTCATGGGCGGCAAGAACACCATCGTGCTGCACAACACCTGTG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G392513_T02 (Zea mays), 3'ss of exon 5
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
| | || | | | | | | | | || | | ||| | | | | || || ||||| ||| | |||||||||||| ||||| || || || ||||| || ||||| |||||||| |||||||| |||||||||
-----------gtctattagctaatcttccacctctttaaaaagctggcacatgcagcagtttaaacgtagatttacattaaaacttgccactcctttgctgcat--gcagTATGTGCCGTACGTGGGAGACAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTCATGGGTGGCAAGAACACCATCGTGCTGCACAACACCTGTG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 3
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| | || | | | || | || || | || | ||| | | ||| ||| | | | || |||||||| | |||||||||||| ||||| || ||||| ||||| || ||||| |||||||| |||||||| || |||||
gtctgttagctgaacttccacctctt-taaaaagatggcacatgcagcagttta--aacgtagatttacattg--aaacttgccactca------tttgttgcat--gcagTATGTGCCGTACGTGGGAGATAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTTATGGGCAGCAAGAACACCATCATGCTGCACAACACCTGCG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G010768_T01 (Zea mays), 3'ss of exon 1
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
| | || | | | || || | | || ||| | | ||| ||| | | | || |||||||| | ||||||||||| ||||| || || || ||||| || ||||| |||||||| |||||||| ||||||||
atttgttagctgatcttccacctctttaaaaagcttgcaggtgcagtag---tttaaacgtagatttacattg--aaacttgccactca------tttgttgcat--gcagTATGTGCTGTACGTGGGAGACAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTCATGGGCAGCAAGAACACCATCGTGCTACACAACACCTATG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G004528_T03 (Zea mays), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| | || | | | || || | || | ||| | | ||| ||| | || | || ||||| ||| | |||||||||||| || || || || || ||||| || ||||| |||||||| |||||||| ||||||||
gtctgttagctgatcttccacctctttaaaaagctggcacgtgcagcag---tttaaacgtagatttacattg--aaacctgccactc------ctttgctgcat--gcagTATGTGCCGTATGTGGGAGACAGTAAGAGGGCTATGGACGAGTACACATCAGAGATCTTCATGGGCGGCAAGAGCACCATCGTGCTGCACAACACCTGCG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: AT5G10170.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| ||||| | || | | | || || | | | | | | ||| || || | || |||||||||||||| | ||||| || ||||||||||| |||||||| ||||| |||||||||||||||||
-----------------------gtgattaa----ttttactattaattataattatccaatctaacaaatcacattaacataaattatacta--ttggatggtgttgcagTATGTGCCATGTGTAGGAGACAGCAAGAGAGCAATGGATGAATACACATCAGAGATATTCATGGGAGGGAAGAACACGATTGTGATGCACAACACTTGTG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: AT2G22240.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATC--TGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| | ||| ||| || | | | | || || ||| | || | | ||||| || || || | || ||||||||||||||| || || | |||||| || ||||| |||||||||||||| || ||||||||||||||
-------------gtttgattttgaatcagaggccagagtgatcaattcctccttt-ctttttaagtacattttaaagtcttaaatcctgctattgttctgaatgttttgcagTATGTGCCATATGTTGCGGATAGTAAAAGAGCAATGGATGAGTACACGTCTGAGATATTCATGGGAGGGAGGAACACTATAGTGTTGCATAACACTTGTG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCT--TTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| | || | | ||| || | | | || | | || || ||||| | || || | |||| |||| ||||||| || || || | |||||| ||| |||||||||| |||||||| |||||||||||||||||
-----------------------gtaaatagagaaccggacagacactcaaaacctgtt-tctgttggcaatctgagatcccattgatccaatttg-tgtgtttgttttgtagTATGTACCGTATGTTGCGGATAGTAAGCGAGCCATGGACGAGTACACATCAGAGATATTCATGGGAGGGAAGAACACAATTGTGATGCACAATACCTGCG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatt-tgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
| | ||| | | | | || || | |||| |||| | | | | || | | | || || ||| || | | |||||| |||||||||||||| || || || |||||||||||||||||||||||||||||||| |||||||||||||||
--gtatatcgcaga-accctccttttgtttgtatgtattacaattcagatgctggtttggactcattcattctcactgg-ctaacattata-cggtgttgttgatattgcagTATGTGCCATATGTTGGAGATAGCAAGAGAGCCATGGATGAGTACACTTCTGAGATATTCATGGGTGGGAAGAGCACCATTGTGCTGCACAACACCTGCG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: PP1S55_204V6.1 (Physcomitrella patens), 3'ss of exon 6
--------gtgaacatcccgaccatgttgt---tgttattaaggtatatttgtttca----------cccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCC----TTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
| | || || || || |||| | ||| || | | || || | || || ||| | || || |||| | | | | || | | ||||||| || ||||| || || || |||||||| || ||||| ||||||||||| ||||| ||||||||
gtattcttatctctactccagccctgcagtcaatgttttcaagccatttcggctttgatttcagactccaagttgtctgcattcacaccgattctcgaatcttcctcttaaccaaaatcaatgacggcgtctgcagTACGTCCCTTATGTGGGTGACAGCAAGAGGGCAATGGACGAGTACACTTCGGAGATCTTCATGGGCGGACGTAACACAATCGTCATGCACAATACGTGCG
upper sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 7
lower sequence: EFJ37320 (Selaginella moellendorffii), 3'ss of exon 7
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT----------------------------------
|| || | || |||| ||||| | | || || |||||| | ||| ||||||| |||||||| || ||||||||| | |||||||| || ||||| || ||||||||||||||
----------------------------------------gtaaaacaaacgcttg---atttttttctagggaaaactcccgagtt-----tgctttcgt---tttctagTATGTTCCTTACGTCGGTGATAGCAAGCGGGCCATGGACGAATACACGTCCGAGATATTCATGGGAGGCAGGAGCACCATCGCCATGCACAACACTTGCGMapped 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|22931962|gb|BU549101.1|BU549101EST: CAACGTTGTTGACGATATGGTCAACAGCAATGCCATCCTCTATGAGCCTG GTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGG
genomic: CAACGTTGTTGACGATATGGTCAACAGCAATGCCATCCTCTATGAGCCTGgtgaacatcc ... ctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT
tttgtttcacccattt CT-rich tract
atttttcactattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaacatcccgaccatgttgttgttattaaggtatatttgtttcacccatttttcactatttctttctcttgtcagGTCTTTGATTCTATCTGCTTTGTTGCCTTTGCAGTATGTGCCTTACGTAGGGGATAGCAAGAGAGCCATGGATGAGTACACTTCAGAGATATTCATGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA