Sequence
atgc intronic sequence ATGC exonic sequencegttcagttttctttttcttcagaggggtgccattttggattcttggattcttggatttttgtgttttgtttatgattgtggcttgttttgatgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAGAAGGCACAGCTGACCCCTGGGGATAATGTTTGGGTCAATGTTGATATTT
Basic information
species | Glycine max |
transcript | GLYMA14G40570.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 2
-------------gttcagttttctttttcttcagaggggtgccattttggattcttggattcttggat-ttttgtgttttgtttat---------------gattgtggcttgtttt--gatgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAGAAGGCACAGCTGACCCCTGGGGATAATGTTTGGGTCAATGTTGATATTT
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gttgggtttctttctttccttcttcatttcttcatttggtttttattttttatttttcattgaattgatgttttctgtagtgggtattaaaatccggtggttgatagtggtgggtttttggattggtttcagGTCAAGACTGCAATGACCATGACTGAAAAGATTTTAGCCAGGGCTTCTCAGAAACCCCAGCTGAGCCCAGGTGAGAATGTTTGGGTAGATGTTGATATCT
upper sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------gttcagttttctttttcttcagaggggtgccattt----tggattcttggattct----tggatttttgtgtttt---gtttatgattgtggcttgttttgatgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAGAAGGCACAGCTGACCCCTGGGGATAATGTTTGGGTCAATGTTGATATTT
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gttcggtttctttctttctttctttctttctttcttcatttctgcttcttcttcattatatatttataatttgcattcgattgttcttttctgtggtgggtattagtatttgatggtttatattagtgggat-tttggattgttttcagGTAAAGACTGCAATGACCATGACCGAGAAGATCTTGGCCAGGGCTTCTGAAAAACCCCAGCTGAGCCCAGGTGAGAATGTATGGGTAAATGTTGATCTCTMapped 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|209702338|gb|BW656311.1|BW656311EST: TCCGTTGTGCTATTGCGGCGCCTCAGCGCCAACCTTCCACCACTGGATCA GTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAG
genomic: TCCGTTGTGCTATTGCGGCGCCTCAGCGCCAACCTTCCACCACTGGATCAgttcagtttt ... tgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcttggatttttgtgttttgtttatgattgtggcttgttttgatgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAGAAGGCACAGCTGACCCCTGGGGATAATGTTTGGGTCAATGTTGATATTT
ttttgat putative branch site (score: 4)
ttttgtttatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcagttttctttttcttcagaggggtgccattttggattcttggattcttggatttttgtgttttgtttatgattgtggcttgttttgatgtgtttcagGTGAGGACTGCAATGACCATGACTGAGAAGATATTGGCCAGAGCTTCTGAGAAGGCACAGCTGACCCCTGGGGATAATGTTTGGGTCAATGTTGATATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA