Sequence
atgc intronic sequence ATGC exonic sequence...tacttgtaataactttctaaagtcttcaatcccaggtcacatttacttttatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
Basic information
species | Glycine max |
transcript | GLYMA03G07890.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 4
tacttgtaataactttctaaagtcttcaatcccaggtcacatttacttttatttt--tcatattagtga-tatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
| || ||| | | || | | |||| |||| | || | | |||| | || | | || | | | | || | || | ||||||||||||||||||| |||||||| |||||||||||||||||||| ||||| | || || ||||| ||||| || || || ||||| ||||| |||
ctgtactagaaacaatttgaaatatg-gatcctttccaacatccaattctgctgcaatcatgctggtttctttttacaactttcctattcctgtttggt--agATATTTGGTGGTGTTGGAATTGCTTGCCTTCCATTGGGACTTATATTCTCATTTGTCCGGCGCCCAAAAGCTGTCATTACACGCTCACAATATATAAAG
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G012284_T01 (Zea mays), 3'ss of exon 2
---tacttgtaat---aactttctaaagtcttcaatcccaggtcacatttacttt-tatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
|| ||| || | ||| | || || ||| | | | | | | |||| || | | |||||| ||| || || | |||||||||||||||| || ||||| || |||||||||||||||||||| ||||| |||| |||||||| ||||| || || || ||||| ||||| |||
gctcacctgtcatttagtactgctataacctgtaa--ccatgctgtaatcgttctgcaattttttctttcattctgctaactataccttttctt---tttggt--agATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCATTTGTTCGTCGTCCAAAAGCTGTAATTACACGCTCACAATATATAAAG
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 4
------tacttgtaataactttctaaagtcttcaatcccaggtcacatttacttttatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
| | | | ||| || | ||| | | | ||| | | | |||| || | | |||||| || | | || | |||||||||||||||| || ||||| || |||||||||||||||||||| ||||| |||| |||||||| ||||| || || || ||||| ||||| |||
ttcgcctgccatttagtactcctgtaacttgtca--tcatgctgtcatcaattctgcattttttctttcattctgctaactataccttattctt--tttggt--agATATTTGGTGGTGTCGGAATTGCCTGCCTTCCATTGGGACTTATATTCTCATTTGTTCGGCGTCCAAAAGCTGTAATTACACGCTCACAATATATAAAG
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------------------------------------------tacttg-taataactttctaaagtcttcaatcccaggtcacatttacttttatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
|||| | | | | ||| | | | | | | |||| | || || ||| | | ||| | || | |||||||||||||||||||||||||||| || || ||||| ||||| | ||||||| | || |||||||||||||||||||| ||||||||||| |||
gtatgtacatctctctattaggtgttttgtgttaaaagtttcacctcattgtcttggaaggcatataatctttctcatattaaggcttggttgtgttctcttgcagttaaaagacttttggtagctgtgattttttgctttcctctaaagattctgagaaactcttttatctcaaatgttgtagATATTTGGTGGTGTTGGTATTGCTTGCCTACCCTTGGGCCTTATCACTGCATTCATCAGGCGACCAAAGGCTGTTATCACTCGGTCACAGTATATAAAG
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 4
tacttgtaataactttctaaagtcttcaatcccaggtcacatttacttt-tatttttca-tattagtgatat--caactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
||| |||| | | | | | | ||| ||| || ||||| || | || | ||||| | | |||| || | | || ||||||||||||||||||||||||| ||||| ||||| |||||||| | ||||||| | || |||||||||||||||||||| ||||| ||||| |||
---gcaagatataattctgtatccattgaagtaaatagatgtttgatttatacatttcagtaaaaaaaatctgataactaat-tgttctctcaaatatttctagATATTTGGTGGTGTTGGTATTGCATGTCTACCATTAGGACTTATCACTGCATTCATCAGGCGACCAAAGGCTGTTATCACTCGATCACAATATATAAAG
upper sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 4
tacttgtaataactttctaaagtcttcaatcccaggtc-acatttacttttatttttcatattagtgatatcaactattgttttctttc-cattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
| | |||| || ||||| | | || || |||| ||| |||| | | | ||| ||| | || ||| ||| |||||||||||||| || ||||||||||||||| | ||||||||||||||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||
gagataggataaaattggaaagttat--gttttagatctggattttttttctttttataaaagtattttattcacttcttttccatttgatgttctatccagATATTTGGAGGGGTTGGTATTGCTTGTTTGCCATTGGGACTTATATTTTCATTCATTCGGCGTCCCAAGGCTGTTATCACACGTTCACAGTATATCAAGMapped 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|208273910|gb|GE068886.1|GE068886EST: CAGAATATGTTGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCT ATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCA
genomic: CAGAATATGTTGTTGCTCTTGCCACTATTGTTGGATCTGTGCTTTTTGCTgtaagttaat ... ttcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
ttgttttctttccatt CT-rich tract
atttttcatattagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacttgtaataactttctaaagtcttcaatcccaggtcacatttacttttatttttcatattagtgatatcaactattgttttctttccattcaatccagATATTTGGTGGTGTTGGTATTGCTTGTCTTCCATTGGGACTTATATTTTCATTCATTCGACGTCCAAAGGCTGTTATCACTCGTTCACAGTATATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - caatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttcca