Sequence
atgc intronic sequence ATGC exonic sequence...tgttgtgccaatgattggtatccctgctcacttaacaataatgttgctgaactagcttcttccactgaatggtttttaacatattggaaaacaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
Basic information
species | Glycine max |
transcript | GLYMA11G02030.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G23850.1 (Arabidopsis thaliana), 3'ss of exon 4
tgttgtgccaatgattggtatccctgctcacttaacaataatgttgctgaactagcttcttccactgaatggtttttaacatattggaaaacaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
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--------------gtaattttgcggctgaatca-tgattatgtcattgattgtgttttgttagaggactgacagt--gcacttttga-------tgtagGCTTGTAATGCACATGGACTCTATTGTGTACCGTTATATGATACACTAG
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G64400.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------tgttgtgccaatgattggtatccctgctcacttaacaataatgttgctgaactagcttcttccactgaatggtttttaacatattggaaaa-----caa---------ttgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
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gtaataatataagagtgacatcatattgattagcataattatatatggtgatgaaatgatgtaccatt-gttcttcacattcactaattttaatcattttatagtaattatcaaattttcatgtttcagGCTTGCAATGCTCATGGACTCTACTGTGTACCTTTATATGACACTCTAG
upper sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------tgttgtgccaatgattggtatccctgctcacttaacaataatgt---tgctgaactagcttcttccactgaatggtttttaac--atattggaaaacaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
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gtattctttcctcctcccatctctttccttttgctcctgcctttcttttg-ctactaccgctgttgttgaagttatattttctatgttactatattttgcctctctctatggttttgatttaatgctgcaaggctaatgcagGCGTGCAATGCTCATGGGCTCTATTGCGTTCCTTTATATGATACCCTAGMapped 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|192305656|gb|FG998356.1|FG998356EST: AATGTGGTATTTATGGTGCCAATTCTGCAGAATGGATTATGAGCATGCAG GCTTGCAATGCTCACGGACTTTATTGTGTTCCTTTATATGATACCTTGG
genomic: AATGTGGTATTTATGGTGCCAATTCTGCAGAATGGATTATGAGCATGCAGgtacatttta ... acaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgaactagcttcttccactgaatggtttttaacatattggaaaacaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
ttttaac putative branch site (score: 2)
tttttaacatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttgtgccaatgattggtatccctgctcacttaacaataatgttgctgaactagcttcttccactgaatggtttttaacatattggaaaacaattgtagGCTTGCAATGCTCATGGACTTTATTGTGTTCCTTTATATGATACCTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
tgttgtg
- - - -ccaatga
- - - - - - - - - - -ccctgct
- - - - - - - - - - - - - - - - - - - - -tgttgct