Sequence
atgc intronic sequence ATGC exonic sequence...accaatgttgttcccttaaaaccgatgataaatcatatcttaatagttctaaattaaagcaccttataggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
Basic information
species | Glycine max |
transcript | GLYMA07G12660.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 5
----accaatgttgttcccttaa-aaccgatga-taaatcatatcttaatagttctaaattaaagcaccttataggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
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ttttgtgagtggagtaattcaaagaacagacaagcatgtttgctctctttgattccagattgaaacctttcc----cttcatg--tacttcaatgttgtctcgcagGTCATGAATTTGATTGGTGATGTTAAGGGTAAAGTGGCTGTTATGGTGGATGACATGATTGACACAGCTG
upper sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------------------------------accaatgttgttccct----taaaaccgatgataaatcatatc--tta---------atagttctaaattaaagcaccttata-------ggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
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gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaaaatcttgtatcaaactgaccaaagaaatatttgattcatgtttggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTGMapped 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|9903105|gb|BE612073.1|BE612073EST: CTCCTTTAGCTATTGTTGATAAAAGGCGCCATGGGCATAATGTTGCTGAG GTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGAT
genomic: CTCCTTTAGCTATTGTTGATAAAAGGCGCCATGGGCATAATGTTGCTGAGgtatgattct ... catcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctaaattaaagcaccttataggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
ttctaaa putative branch site (score: 2)
tctcatctt putative PPT
aaattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accaatgttgttcccttaaaaccgatgataaatcatatcttaatagttctaaattaaagcaccttataggctttgtgattgggtgaatctcatcttgcagGTGATGAATTTGATTGGTGATGTAAGGGGAAAGGTAGCAGTTATGGTTGATGACATGATTGATACTGCTG
-ccaatgt
- - - - tgttccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgggtg