Sequence
atgc intronic sequence ATGC exonic sequence...tatggtgccacgctaatgacatctatgaataggttgttaggaacactaccacacaaaaatggctcagcccttaaattttttttttctggtcattttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA
Basic information
species | Glycine max |
transcript | GLYMA18G44580.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44580.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os11g02464.1 (Oryza sativa), 3'ss of exon 1
--tatggtgccacgctaatgacatctatgaataggttgttaggaacactaccacacaaaaatggctcagcccttaaattttttttttctggtcattttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA-
|||| | ||| || | | || | | | ||| || |||| ||| | | | || | | |||||||| ||||| |||||| ||||||||||| || | ||||||||| || || ||||| |||||||||||| | ||| | |||| || |||||||
attatg-taacacttctatttgtcttctctctaatgtctcattcttacttgattacctaaatatacagtttgttatgtgacatggtctctgttgtat--acagATTGCTTTTTCACAAAGAAGGCATGGAATGCACAAAACGCTGGAGCAGCAGCCATCCTTGTTGCTGATGACAAGACGGAACCCCTGATTACAATGGACAC
upper sequence: GLYMA18G44580.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G347541_T01 (Zea mays), 3'ss of exon 1
---tatggtgccacgctaatgacatctatgaataggttgttaggaacactaccacacaaaaatggctcagcccttaaattttttttttctggtcattttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA-
| || | || | | || ||| | |||| | || ||| ||| | | || | | ||| | | | | | || ||| |||||| |||||| | |||||| |||||||||||||| | ||||||||||| || ||||| ||||||||||| | ||| | | || || |||||||
ctgtctgctctca-gatgttgcatcctactactagggttcactaaaatatactaca-acggactgcatattaatacaatatactgtctgttgttgttt--acagATTGTTACTTCGCAAAGAAGGCATGGAATGCACAGAAAGCAGGAGCAGCGGCAATCCTTGTTGCTGATGACAAAGACGAACCTCTAATTACAATGGACAA
upper sequence: GLYMA18G44580.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G389362_T01 (Zea mays), 3'ss of exon 2
tatggtgccacgctaatgacatctatgaataggttgttaggaacactaccacacaaaaatggctcagcccttaa-attttttttttctggtcatt-ttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA-
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--taaaactccttccggtctgttctcagatgttgcatcaggttcattaaaata-gacaatgggtatgcatatagcaatacaattcaatgtttgttgtttacagATTGCTACTTTGCAAAGAAGGCATGGAATGCACAGAAAGCAGGAGCAGCAGCAATCCTTGTCGCTGATGACAAAGATGAACCTCTAATTACAATGGACAAMapped 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|208146526|gb|GD946307.1|GD946307EST: TTCAGTCCAAGCCAGGAGGGCTTCCCACTTT-CTTCTTGTTGATCGTGGA GAT-GCTACTTCACTT
genomic: TTCAGTCCAAGCCAGGAGGGCTTCCCACTTTTCTTCTTGTTGATCGTGGAggtgaaattc ... cattttggtaGATTGCTACTTCACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaccacacaaaaatggctcagcccttaaattttttttttctggtcattttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA
ttttttttttctggtc CT-rich tract
ttaaattttttttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatggtgccacgctaatgacatctatgaataggttgttaggaacactaccacacaaaaatggctcagcccttaaattttttttttctggtcattttggtaGATTGCTACTTCACTTTGAAGGCGTGGAATGCACAGAATGGTGGAGCAGCGGCTATTCTTGTAGCTGATGACAAGGCAGAAACATTGATCACTATGGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
tatggtg
- - - -ccacgct
- - - - - - - - - - - ctatgaa
- - - - - - - - - - - - - - - -ggttgtt
- - - - - - - - - - - - - - - - - - - - - - - - ccacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttaa