Sequence
atgc intronic sequence ATGC exonic sequence...tgcaacagttctgttgctttcttacttttcatagaagcagtttaaaactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
Basic information
species | Glycine max |
transcript | GLYMA10G05530.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05530.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g57540.1 (Oryza sativa), 3'ss of exon 2
-tgcaacagttctgttgctttcttacttttcatagaagcagtttaaaactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
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agatgctatttttgtgcctatattgcatat-atcgttgaggccaacaatcatcaactacttgttaaatcttatccactggaactattttgtgctttggtagGAGATACTTGAAGGAGTCACGGATATTGATTTGGTCATCAACCTCAAACTCCGAGAAGAGGCTCTGCTTGCAAAATGCCTTGGTAGAAGGATGTGCAGCC
upper sequence: GLYMA10G05530.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G150014_T03 (Zea mays), 3'ss of exon 2
tgcaacagttctgttgctttcttacttttcat-agaagcagtttaaaactttaaaaaacggaata-----ctcaaattctacaatgtttttgtttttcgctc--gcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
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--------atccctggatttctatctcaacgttataacttgtgtcaaaccttagacactggggtagactgcttggtcctaatactggttttatcatgtgccctgtcagGAGATACTTGAAGGAGTCACAGACATTGATTTGGTGATCAATCTCAAACTCCGAGAAGAAGCTCTGCTTGCGAAATGCCTTGGCAGGAGGATGTGCAGCC
upper sequence: GLYMA10G05530.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G081387_T01 (Zea mays), 3'ss of exon 2
---tgcaacagttctgttgctttc-ttacttttcatagaagcagtttaaaactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
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gcattgaacagtggattggtatccatggcattcaatcttaacatcaacatgtgttgaagaattgtagggcctaatattgt----tttatcatgtgccttgtcagGAGATACTTGAAGGAGTCACAAATATTGACTTGGTGATCAATCTCAAGCTCCGAGAAGAAGTTGTGGTTGCAAGATGTCTTGGCAGAAGGATGTGCAGCCMapped 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|19271111|gb|BM887367.1|BM887367EST: GCGATCTGGGATTTATTCTTGATGGTTTTCCTCGAACAATTAAGCAAGCA GAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTC
genomic: GCGATCTGGGATTTATTCTTGATGGTTTTCCTCGAACAATTAAGCAAGCAgtgagtttct ... tcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
tttttgtttttcgctc CT-rich tract
aatgtttttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcaacagttctgttgctttcttacttttcatagaagcagtttaaaactttaaaaaacggaatactcaaattctacaatgtttttgtttttcgctcgcagGAAATATTGGAAGGGGTAACTGACATTGACTTGGTAATCAATCTGAAGCTCCGAGAAGATGTTCTGCTTGAGAAATGCCTTGGTAGGAGAATTTGCAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
tgcaaca
- - - - - ctgttgc
- - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actcaaa