Sequence
atgc intronic sequence ATGC exonic sequence...tataagaagccttaggggttcattgattactttgccaaacccctctccccttcatatattaattttaatttaattttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
Basic information
species | Glycine max |
transcript | GLYMA19G04210.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g30260.1 (Oryza sativa), 3'ss of exon 1
tataagaagccttaggggttcattgattactttgccaaacccctctcccctt--catatatta---attttaatttaattttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
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----ttcaggtttgcaaattgcagggtagccacatttatttgcttttactttgtgatatattatacatttttttttgttgtgaaatttgcctgtctctctg-cagAAGCATATGATCCTCTCGATCCAAATGGGAATATCACAATCAAGTGGGACATCACACAGTGGACCCCAGATGGCTATGTT
upper sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g54750.1 (Oryza sativa), 3'ss of exon 1
-tataagaagcct--taggggttcattgattactttgccaaacccctctccccttcatatattaattttaatttaattttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
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ccgcgaatttcttattagttgtgtggtgtgtacctt-ttaaatcggaatcgggat-gtaacttaatgcttaattcatattctctctcttttttt-tcttgcagAAGCTTATGATTCGCTGGATCCAAATGGGAACATCACAATAAAATGGGACGTTATGCAATGGACTCCTGATGGTTACGTT
upper sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G29810.1 (Arabidopsis thaliana), 3'ss of exon 1
tataagaagccttaggggttcattgattactttgccaaacccctctccccttcatatattaattttaatttaat---tttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
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-tctattatcttaaccaattgataggaaaaagtcttaattttgtgtttgttctgttttctggttatgagctcacatgtttgagattatctttctaaca--cagAAGCTTATGATGCACTTGATCCATATGGAAACATTACTATAAAATGGGATATTATGAGCTGGACTGGTGATGGTTATGTG
upper sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 1
tataagaagccttaggggttcattgattactttgccaaacccctctccccttcatatattaattttaa--tttaattttgagtttttctgtttatc--tttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
|| || || | | | | ||| | | ||| | | || || |||| || | |||| |||| || |||||||||| |||||| |||| ||||| ||||||||||||| |||||||||||||| || || ||||| || ||||| ||||||
---aatgttttctaatatctctattgtgtgtcagtgaaatatatatatttctcagaaaagggattgaagatttagcctt-atcttttgggtttctccttttcagAAGCCTATGATGCACTGGATCCCAATGGAAATATCACGATCAAATGGGATATTATGAGCTGGACTCCAGATGGCTATGTT
upper sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv17s0000g05070.t01 (Vitis vinifera), 3'ss of exon 1
tataagaagccttaggggttcattgattactttgccaaacccctctccccttcatatattaattttaatttaattttgagtttttc-tgtttatcttt-cagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
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--ccaaaaaaagaaaagattgaactctccctttatgaaatttaatgtcatgagaatcttaagaattgaggtattcatctttctttggtggatgtttctgcagAAGCCTACGATTCGCTTGATCCAGAGGGAAATATCACCATCAAGTGGGATGTAATGAGCTGGACTCCAGATGGTTATGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccccttcatatattaattttaatttaattttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
tttttctgtttatctt CT-rich tract
atatattaattttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tataagaagccttaggggttcattgattactttgccaaacccctctccccttcatatattaattttaatttaattttgagtttttctgtttatctttcagAAGCTTATGATCCACTTGATCCATATGGAAATATCACAATCAAATGGGATATCATAAGTTGGACCCCTGATGGTTATGTT
- - - - - - - - - - - - - - -ctttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgtt