Sequence
atgc intronic sequence ATGC exonic sequenceTATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
Basic information
species | Glycine max |
transcript | GLYMA07G38890.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os07g33670.1 (Oryza sativa), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgct--gttgtttgcatcaattaggct--gtattttag--ttttagttatttccatttctgta--ttgttatttatgtgtatttattttcatcctgcaacatgccttaag---------
||| ||| |||||||||| || ||||| ||||||| ||||| | || || |||||||| ||||| ||||| |||||||| ||||||||||| ||||||| ||| || || ||||| || || | | | ||| | || || ||| | ||||||| | | | || || | ||| | | |
ATTAAACGTGGTGCTTTCATGGGTAGCTGCAAGCATCGCATATGGGAAGCCATAAGAGCATCTTCTGCAGCTCCATATTATCTGGATGATTTCTCTGATGgtagatattcctaaacttagttgtggatattgttttgtgcaagaacagtaggcctctatttgtttgagtcctcaagatttgttatccac-cgcagttcttatagccctttttttttcttcctttctcttcag
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: AT1G61850.1 (Arabidopsis thaliana), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
| |||||||| || ||||| ||||||||||| || ||| | || || |||||||||| |||||||| ||||||||||||||||| |||| |||||| | || || | | | || | || | || ||| || || | || |||| ||| | || | | | ||
------CAAAGTGCTTTTATGGGAAGTTGTAAGCATCAGGTTTGGCAAGCGATACGAGCATCATCAGCTGCTCCATATTATCTTGATGATTTTTCAGTTGGTACAAgtctaccttctctattctccactcttatccatgactctttgttgtaa--------gcttttacgctgatattatcttgtttcctttctaaatcattaag----------
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: AT1G61850.2 (Arabidopsis thaliana), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
|| |||| |||||||| || ||||| ||||||||||| || ||| | || || |||||||||| |||||||| ||||||||||||||||| |||| |||||| | || || | | | || | || | || ||| || || | || |||| ||| | || | | | ||
TACAAGCAAAGTGCTTTTATGGGAAGTTGTAAGCATCAGGTTTGGCAAGCGATACGAGCATCATCAGCTGCTCCATATTATCTTGATGATTTTTCAGTTGgtacaagtctaccttctctattctccactcttatccatgactctttgttgtaa--------gcttttacgctgatattatcttgtttcctttctaaatcattaag----------
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv10s0116g00830.t01 (Vitis vinifera), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattg--ttatttatg-tgtatttattttca--tcctgcaacatgccttaag---------------------------------------
||||| || |||||||| ||||| || ||||||||||| ||||| | ||||| |||||||||||||||||||| || ||||||||||||||||| |||||||||| | |||| || |||| | || | | || | || | | |||| || | | ||| | || || | || | |||| || | || || |
TATAAACGCAGTGCTTTTATTGGTAGTTGTAAGCATCATATATGGCAAGCTATAAGAGCATCATCTGCTGCTCCATACTATCTTGATGATTTCTCTGATGgtactg-tctttctg----tgcttgcttgaaatgactcatcacttggcatttgct-tttctggttttatgttgaatgccttgtgctttacctctttttggttctaagagtttgttttgtgtttcttttttttctttttttcctaattcaatttcatcag
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S69_157V6.1 (Physcomitrella patens), 5'ss of exon 11
-TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgc-tgttgtttgcatcaattaggc-tgtattttagttttagttatttccatttctgtattgttattta-tgtgtatttattttcatcctgcaacatgccttaag
| | | ||||| ||||| || ||||||||||||| | ||||| | ||||| | ||||||||||| ||||| ||||| || ||||| |||||| | |||| ||||| | | || | | | | | || || |||| | | ||| | | | ||| | | | | ||||| | ||| ||
CCACGAA-GAAGTGCCTTCATAGGTAGCTGTAAGCATCGAATATGGGAAGCTATTCGTGCATCATCTGCAGCTCCCTATTACCTCGATGACTTCTCACAAGgtat--attaccgttcatgatagcagtacaatacgtgtgtgagcattggtttggttagctgtggttttagaaccggaggttactaaatttcaaaattcattattttgggtgctggcag
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ31555 (Selaginella moellendorffii), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
|| | |||| || | ||| | |||||| | ||||| ||||||| || |||||||||||||||||||| || || ||||||||||| ||||| || |||| || | || ||| || |||| || | | ||| | |
CCGAAAAGATGTGCATTTTTGGGATCGTCTAAGCACCGTATATGGGAGGCTATAAGGGCATCATCTGCTGCTCCTTACTACCTGGATGATTTCTCTATAGgtacatatcga---------aaatgcagcagt--agccatatgtt--ttttctttttcttttttttggcag--------------------------------------------
upper sequence: GLYMA07G38890.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ38595 (Selaginella moellendorffii), 5'ss of exon 11
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
|| | |||| || | ||| | |||||| | ||||| ||||||| || |||||||||||||||||||| || || ||||||||||| ||||| || | || | || | | | || | ||| || |||| ||| || |
CCGAAAAGATGTGCATTTTTGGGATCGTCTAAGCACCGTATATGGGAGGCTATAAGGGCATCATCTGCTGCTCCTTACTACCTGGATGATTTCTCTATAGgtacatataaa--aaatgcag----cagtagccatatgtttttctttctttctttctttctttttttgggcag------------------------------------------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|13311431|gb|BG405082.1|BG405082EST: AGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCGGATG ATGTCAACCGCTGGCAAGATGGTGCAATAGTGGCTAACAATCCTACAATTT
genomic: AGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgatta ... atgccttaagATGTCAACCGCTGGCAAGATGGTGCGATAGTGGCTAACAATCCTACAATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATAAGCGTAGTGCTTTCATTGGAAGCTGTAAGCATCAAGTATGGAAGGCTATCAGAGCATCATCTGCTGCTCCTTATTATCTTGATGATTTCTCAGATGgtactgattactctgctgttgtttgcatcaattaggctgtattttagttttagttatttccatttctgtattgttatttatgtgtatttattttcatcctgcaacatgccttaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG