Sequence
atgc intronic sequence ATGC exonic sequence...tcatatttacacgtgtgtgatgggtagagaattcccaggggtatgaatttcattattctttatattaatgttaatattaggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG
Basic information
species | Glycine max |
transcript | GLYMA07G21660.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G21660.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g48100.1 (Oryza sativa), 3'ss of exon 1
tcatatttacacgtgtgtgatgggtagagaattcccaggggtatgaatttcattattctttatattaatgttaatattaggt-tttcttgtctcattat----agGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG
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----ggatatacacgaaaaatgattatcttcctcctagttgtactc-ttcagttcttcattaatgagatgttagtctaacatataccttgtaaaattatttctagGCTGCTTTCATGGTTCCAACGGAGGTTCTTGCCCTCCAGCATTATGAACATCTAACTTCATTGCTGGAGAAGTTTGATGGAGATGAATGCAAACCAAACA
upper sequence: GLYMA07G21660.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G315176_T02 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------tcatatttacacgtgtgtgatgggtagagaat-----tcccaggggtatgaatttcattattctttatattaatgttaatat-taggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG---
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gtatcatactactgtgcattaaagaggctgccagtgaaatccagcttgcttagttatattaagttgtttacgccaatcggagatgagaaaacaatcaattttgttcctgtgtcactttcttcagtcaggagttacagttcaatatattcacttccacatttctttctagGCTGCTTTCATGGTTCCAACAGAGGTGCTTGCTGTCCAGCATTATGAACACCTAACTTCATTGCTAGAGAAGTTTGATGGAGATGAG---AAACCAAATATTG
upper sequence: GLYMA07G21660.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g04880.t01 (Vitis vinifera), 3'ss of exon 11
tcatatttacacgtgtgtgatgggtagagaattcccaggggtatgaatttcat-tattctttata-ttaatgttaatattaggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG
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tgagatatttggctattaaaaattttgaaacttactccatttatagatttgatgcaggataggtaattgattgttagatttacttttctaatct--ttttagGCAGCTTTCATGGTTCCAACTGAGCTGCTTGCTCTCCAACATTATGAGCAACTCATCAATTTGCTGGAGAATATGGAGGGGGCTGAGTGCAAACCTTCTAMapped 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|19452470|gb|BM953880.1|BM953880EST: CTGTTGTAGCTTTTCTTGCATGCATTGAAGTTATTGGCTCTGGCTATCAG GCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCAT
genomic: CTGTTGTAGCTTTTCTTGCATGCATTGAAGTTATTGGCTCTGGCTATCAGgttggtccac ... ctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttcattattctttatattaatgttaatattaggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG
ttttcttgtctcatt CT-rich tract
attattctttatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcatatttacacgtgtgtgatgggtagagaattcccaggggtatgaatttcattattctttatattaatgttaatattaggttttcttgtctcattatagGCTGCTTTCATGGTTCCTACCGAGTTGCTTGCGATCCAGCATTATGAGCATTTGCTTAAATTGCTCGAAAACTTGGATGAGGTCGTGTTCAAGCCAACTG
- - - - - - gtgtgtg
- - - - - - - - - - - - - - - -ttcccag
- - - - - - - - - - - - - - - - - - - -ggtatga