Sequence
atgc intronic sequence ATGC exonic sequence...tttcttctttctcccttcttcttctatcagcaaccttgatgaattaagtggaaactcaaaggttaagatttgattttagttatggaattgaacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATATTCTACGAGGGAAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGATAG
Basic information
species | Glycine max |
transcript | GLYMA04G34330.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G34330.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g40310.1 (Oryza sativa), 3'ss of exon 1
-tttcttctttctcccttcttcttct--atcagcaaccttgatgaattaagtggaaactcaaaggttaagatttgattttagttatggaattgaacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATATTCTACGAGGGAAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGATAG
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gtaaccaagctagccatgccccgtctcgactgaaattggagatgtgttcatccatgatccatccatggcggattaatt--ggttg-gatattgggggtg-cagGTGAACAGGTACGACGAGAAGTGGTCGAAGCAGTGGTTCGGGGCGGGGATATTCGCGGAGGGGAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGCTGG
upper sequence: GLYMA04G34330.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv17s0000g05650.t01 (Vitis vinifera), 3'ss of exon 1
---tttcttctttctcccttcttcttctatcagcaaccttgatgaattaagtggaaactcaaaggttaagatttgattttagttatggaattgaacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATATTCTACGAGGGAAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGATAG
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gacctagaaatataggttacaattcacttccttctcctctgatttcccagcagcccaacagagggttaa--tttcattttgccaccacaatttgaagcg-cagGTGAACAGATACGATGAGAATTGGAAGAAAGAGTGGTTCGGAGCAGGAATATTCGTGGAGGGAAGCGAAGAGGTGGAGGTGGACGTTTTCAAGAATCTGGMapped 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|7283958|gb|AW596559.1|AW596559EST: CCGCCGCCAGAAAACCCCTAACCGTCTTCGCCATGGCCCCCAAAAAGAAG GTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATA
genomic: CCGCCGCCAGAAAACCCCTAACCGTCTTCGCCATGGCCCCCAAAAAGAAGgtacaaattc ... aacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATA
EST:
gi|15287235|gb|BI471126.1|BI471126EST: CCGCCGCCAGAAAACCCCTAACCGTCTTCGCCATGGCCCCCAAAAAGAAG GTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATA
genomic: CCGCCGCCAGAAAACCCCTAACCGTCTTCGCCATGGCCCCCAAAAAGAAGgtacaaattc ... aacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtggaaactcaaaggttaagatttgattttagttatggaattgaacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATATTCTACGAGGGAAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGATAG
atttgat putative branch site (score: 5)
ttaagatttgatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcttctttctcccttcttcttctatcagcaaccttgatgaattaagtggaaactcaaaggttaagatttgattttagttatggaattgaacttggtagGTGAACAAGTACAATGATAAGTGGAAGAAGGAGTGGTTTGGAGCGGGGATATTCTACGAGGGAAGCGAGGAGGTGGAGGTGGACGTGTTCAAGAAGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - ttctccc
- - - - - - - cttcttc
- - - - - - - - - - - - - - - - - cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - -actcaaa