Sequence
atgc intronic sequence ATGC exonic sequence...gaattttattaatgatagattgaccagaagttctcaccttgaaactgtaaatgtaatttgcttcagtggttatttatatgttcttttgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
Basic information
species | Glycine max |
transcript | GLYMA03G24280.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 4
gaattttattaatgatagattgaccagaagttctcaccttgaaactgtaaatgtaatttgcttcagtggttatttatatgttcttttgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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-gtatgcactgatg-catgttgactgataactgcttgcatgtgatttcatttatgatt-ataactttgtctttctttttgattctttgatctgtca--agCCTGTGATTCTTGATTACCTCGCCAGCAAGACAATATGTTCAGATGACCTGGTGGTGGTGTCTCCGGATGTTGGAGGTGTTGCCAGGGCACGTGCTTTTG
upper sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 4
-----------gaattttattaat--gatagattga---ccagaagttctcaccttgaaactgtaaatgtaatttgcttcagtggttatttatatgttcttttgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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gtatatgtactgaagcatgctacttaaatctattaattcctttaagacttagtgtttatgatggtattcatccttcttataattgttttctatttttcctgtttgatccgtga-agCCTGTTATTCTTGATTATCTCGCCAGCAAGACAATATGTTCAGATGACTTGGTAGTTGTATCTCCTGATGTTGGAGGTGTTGCCAGGGCACGTGCCTTTG
upper sequence: GLYMA03G24280.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 4
gaattttattaatgatagattgaccagaagttctcaccttgaaactgt--aaatgtaatttgcttcagtggttatttatatgttcttt-tgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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---ctggatttatactttacagatatattgttttctgccatgacttgtttaaccttaatttggtttattgatccatgaacttttgtttgtttgtccacgctagCCTGTGATACTTGATTATCTTGCAAGCAAAACTATTTGTTCTGATGATTTGATAGTGGTCTCACCGGATGTTGGTGGAGTTGCTAGAGCGCGTGCTTTTGMapped 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|254341396|gb|GR855124.1|GR855124EST: GGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGCCAG CCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTG
genomic: GGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGCCAGgtaacggatt ... ccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTG
EST:
gi|6566864|gb|AW234496.1|AW234496EST: GGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGCCAG CCTGTTATACTTGATTACCTTGCCAGCAAGACTATNTGTTCAGATGATTTG
genomic: GGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGCCAGgtaacggatt ... ccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaaatgtaatttgcttcagtggttatttatatgttcttttgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
ttatttatatgttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattttattaatgatagattgaccagaagttctcaccttgaaactgtaaatgtaatttgcttcagtggttatttatatgttcttttgtgccactgccagCCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCGCCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA