Sequence
atgc intronic sequence ATGC exonic sequence...taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
Basic information
species | Glycine max |
transcript | GLYMA05G36910.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g48910.1 (Oryza sativa), 3'ss of exon 8
taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
| || | | | | || || ||| | | | | || ||| || | | | || | | | |||||| | | | | | ||| |||||| || |||| |||| | |||||||||||||| || |||||||| |||||||| || ||||||||||| |
cctgtttctgtttcaactctacaaaataattttatggacatcagagcaatgtgactttatattcatctggtattaagataattatctgttttacctgcagGGAGGTGAAGAAAAGTATGAACTTCCTACAAAGCAAAAGGATGATATCTGTACAATAATGTACACCAGTGGAACAACTGGTGACCCTAAGGGAGTTTTAA
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g46750.4 (Oryza sativa), 3'ss of exon 5
taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA---
| | | |||| | || | | | || ||| || | ||| | || | ||| | | || | || || |||||||| || ||| ||| | ||| | ||||| ||||||||||| ||||||||||||||||| ||||| || || |||
--ctttctaatttggaaagttgtttcaagagttcattttacacctattttattaggatagcttttcagatattctatttttcacatgacattgtatcttcagGCA-GACCAAGAATTCGATCTTCCAGTGAAAGCAAAGACTGACATATGTACTATAATGTATACCAGTGGAACTACTGGTGACCCCAAAGGTGTACTGATCT
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G152127_T01 (Zea mays), 3'ss of exon 8
----------------------------------------------------------------------------------taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctca-ttcctcattccagtttttgatgtctag--agcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
| | ||| ||| | || | | || | | || || || || | ||| || | | ||||| ||| | ||||| ||| ||| ||||| ||||| || |||| ||| | |||||||||||||| || |||||||| ||||||||||| |||||||| | |
gtaaggttctcctttcctgaccaaatcacacatggaatgaataagtgcttagttacaagaatattaataatgtgttaaggcatgtttttcatttcaaatttatacatttttgggggcatccttgcgagaaata--tgccttgatatatcagttagaaaattattttttttctgttctaccaacagGGAGGTAAAGAGAAGTTTGAACTTCCACCCAAGGAAAAGGATGACATATGTACAATAATGTACACCAGTGGAACAACTGGTGATCCTAAGGGAGTACTAA
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G861300_T01 (Zea mays), 3'ss of exon 8
-----taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctcattcctc-attccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
|| | | | | || | ||| | || | | ||| | | | | | | | || ||| | || ||| ||||| | | || ||||||||||| || || | || || | || || ||||||||||| ||||||||||||||||| || || ||||| |||
tggattagttattgtacct--attggtttaactgtataattcatataagaa-atttgtgactataaatgcctacccttccatttacatgagctatatct---gcagGCGGCTGACCAAGAATTTGATCTTCCAGTCAAGGAGAAGGCAGACATATGCACTATAATGTATACTAGTGGAACTACTGGTGACCCAAAAGGAGTACTGA
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G64400.1 (Arabidopsis thaliana), 3'ss of exon 8
taactctcagctcagaaaaggccaaggaaagcaatgtgtttatgg-atattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
| |||| || | ||||| | ||||| | | || ||| |||| | | | | | | |||| | | | || ||| | || | || | | ||| ||||| || || ||||||||||||||||| || ||||||||||| || ||||| |||
----------------------gtaagaaaatcatatttttattctactttaac--atcagaattatcaaaa-tcatgaatatatattacttaatttgaagGGCGAGGGTAAACATTATGAATTACCAGAGAAGAGGAGAAGCGATGTTTGCACCATAATGTATACAAGTGGCACAACTGGTGATCCTAAAGGAGTATTGC
upper sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 8
taactctcagc--tcagaaaaggccaaggaaagcaatgtgtttatggatat-taactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
| | || || | | | || | | ||||| | || | | || | | | ||||||| | || ||||| || || | | ||||||||||| | | ||| |||| || | |||||||||||||| ||||||||||| || ||||| ||||| || || |||
-agttttctgcatttttccctctttattgttagatacctatttataaacatgctattttgcctatagaaaagttaaagcttgtgtttttgtttgctc--acagGGAGATGATAAAAAATTTGATCTTCCATTGACAAAGAAAAACGACATTTGTACAATAATGTACACAAGTGGAACAACCGGTGACCCCAAAGGTGTGATGAMapped 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|208155891|gb|GD954465.1|GD954465EST: TGAAGAGTTTGGGTTAGCAATGTATTCATGGGATGAATTTTTGCAAGTAG GGTCATAATCAGAGTTTTGANCTTCCTGT
genomic: TGAAGAGTTTGGGTTAGCAATGTATTCATGGGATGAATTTTTGCAAGT-Ggtgcgttatt ... tctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
tttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taactctcagctcagaaaaggccaaggaaagcaatgtgtttatggatattaactggtttcatttctcattcctcattccagtttttgatgtctagagcagGGTCATAATCAGAGTTTTGATCTTCCTGTTAAAAAAAAAAGTGATGTGTGTACAATAATGTATACAAGTGGAACTACTGGTGATCCCAAGGGAGTTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - -ccaagga
- - - - - - - - - - - - - - - -caatgtg