Sequence
atgc intronic sequence ATGC exonic sequence...atcttggtactgcctggtagaaagaactgagaattcacaactgttgtgtttgtttcagaaacaattcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
Basic information
species | Glycine max |
transcript | GLYMA19G30880.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G30880.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G095141_T02 (Zea mays), 3'ss of exon 8
atcttggtactgcctggtagaaagaactgagaattcacaactgttgtgtttgtttcagaaacaattcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
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------gta-tgtttcgtcattggtctacgacattcatag-----agatatgcctaacacaca---cagacacacacatacacattcattgtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCGTATGCCAAGGGCGCCACTGGCAACGTCGCCACGGAGGATGTCGTGTACA
upper sequence: GLYMA19G30880.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G095141_T01 (Zea mays), 3'ss of exon 6
atcttggtactgcc-tggtagaaagaactgagaattcacaactgttgtgtttgtttcagaaaca-attcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
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--gtaagcaaagcaacggtatgtttcgtcattggtctacgacattcatagagatatgcctaacacacacagacacacacatacacattcattgtctcgtcagATGGGGATCAACATAGTGGACTCGTCGGTGTCGGGCCTTGGAGGCTGCCCGTATGCCAAGGGCGCCACTGGCAACGTCGCCACGGAGGATGTCGTGTACA
upper sequence: GLYMA19G30880.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g01170.t01 (Vitis vinifera), 3'ss of exon 8
----atcttggtactgcctggtagaaagaactgagaattcacaactgttgtgtttgtttcagaaacaattcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
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gcatactcagttaaggatcaaaattggctcaacaacattactaatcatgatgggtgttt--gctttattccatattttat--acactatctcttttctatacagATGGGGATCACCACAGTGGATTCATCAGTATCTGGTCTTGGGGGCTGCCCATATGCTAAAGGTGCTTCTGGGAATGTTGCGACTGAGGATGTTGTTTACAMapped 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|209700822|gb|BW661253.1|BW661253EST: TTCATGATACTTATGGTCAGGCACTTTCAAATATTTTAATTTCACTTCAG ATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCA
genomic: TTCATGATACTTATGGTCAGGCACTTTCAAATATTTTAATTTCACTTCAGgtaaataact ... tattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCA
EST:
gi|13480273|gb|BG509616.1|BG509616EST: TTCATGATACTTATGGTCAGGCACTTTCAAATATTTTAATTTCACTTCAG ATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCA
genomic: TTCATGATACTTATGGTCAGGCACTTTCAAATATTTTAATTTCACTTCAGgtaaataact ... tattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtttgtttcagaaacaattcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
tttatttt CT-rich tract
tcatttattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttggtactgcctggtagaaagaactgagaattcacaactgttgtgtttgtttcagaaacaattcctacttggttaaatctggtcatttattttatagATGGGGATCAGCACAGTGGATTCATCTGTTTCTGGTCTTGGAGGTTGTCCATATGCCAAGGGTGCAACTGGGAATGTAGCCACTGAGGATGTCGTTTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - -tactgcc
- - - - - - - - - -gaaagaac
- - - - - - - - - - - - - - - - attcaca
- - - - - - - - - - - - - - - - - - - -actgttg
- - - - - - - - - - - - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaacaa