Sequence
atgc intronic sequence ATGC exonic sequencegtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
Basic information
species | Glycine max |
transcript | GLYMA16G04580.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 3'ss of exon 4
gtaggtaatctgttctttgtatttaaa-caacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgta-atttgacattgat--aagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
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--------------------atttggagttatctgttgaagggtaccgtagtactgtagtgccactacttactact-tcgagaaccaaccttactatttgtgcgttttgcatgtgtttcagTGCTCTGAATGGATGTTATGGTATACCCTGGGTTCACTACAAAGGCCGGCAGGGGGACTATTATGTTCTG
upper sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G116086_T01 (Zea mays), 3'ss of exon 4
gtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcag---atgttctaata-ttattat-ctaattctcacattt--gtaatttgacattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
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------------------------atatgatgttattacttattaatatttttactactattaaggacaaatcttactagccattttactaactgtcatgtttttgttgttcatccgcttcaagTGCTCTGAACGGGTGTTATGGTGTACCATGGGTTCATTACAAAGGTCGACAAGGAGATTATTATGTTCTG
upper sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 4
gtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattat--ctaattctcacatttgtaatttgacattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
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--------------------------gtaagactaattgtggt-taaatttgttttaaatttaaaggcttaaattatcattttgatttttgtttttctttctttttcccccttgaaaagCACTCTAAATGGTTGTTATGGGATTCCCTGGGTTCACTACAAGGGTCGCCAAGGAGATTACTACATTCTGMapped 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|193666102|gb|FK612189.1|FK612189EST: AACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAG CACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCA
genomic: AACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatc ... cattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagatgttctaatattattatctaattctcacatttgtaatttgacattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
taatattattatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataagCACTCTGAATGGCTGTTATGGCATTCCCTGGGTTCATTACAAGGGTCGGCAAGGAGATTTCTACATTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT