Sequence
atgc intronic sequence ATGC exonic sequencegtaaatctattcatgatttttaatctctggctctcggcccagtgatacctgaccgttgaaaaaagaagaagaagaaaactattacatttttcttgtgattgggtcatcctagatatcttgacatagatgttctttttctttccttttctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAAGAATCTGTGGAATTCTTGCCTAAAGAAGAAACTGAGGCAAAGAGGAATA
Basic information
species | Glycine max |
transcript | GLYMA19G41010.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41010.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g02480.t01 (Vitis vinifera), 3'ss of exon 2
gtaaatctattcatgatttttaatctctggctctcggcccagtgatacctgaccgttgaaaaaagaagaagaagaaaactattacatttttcttgtgattgggtcatcctagatatcttgacatagatgttctttttctttccttttctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAAGAATCTGTGGAATTCTTGCCTAAAGAAGAAACTGAGGCAAAGAGGAATA
|| || || | | || | || | | || | | |||||||| || | ||| |||||| || |||| ||| ||||| ||||| ||||| ||||| || |||| || | || |||||||||||||||||| ||||||| |||||| | |||||||| || ||||| ||||| ||
-----------------------------------------gtcatcactcctctcttaatatctaaacttcaccttatcctttcttctttcttgttttt---------catgtatgctgacattactgggtttttg-------gggcttcctcagGTGGTCCCAAATCGCAGCACAGCTGCCTGGACGCACTGACAATGAAATAAAGAATTTGTGGAACTCTTGCTTGAAGAAGAAGCTCAGGCAGAGAGGCATTMapped 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|192323728|gb|FK016034.1|FK016034EST: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAG ATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
genomic: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAGgtaaatctat ... tctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
EST:
gi|192331563|gb|FK019952.1|FK019952EST: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAG ATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
genomic: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAGgtaaatctat ... tctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
EST:
gi|23064340|gb|BU579113.1|BU579113EST: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAG ATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
genomic: CAAGAGGAGGAAACTCTCATCATTGAACTTCATGCAGTGCTAGGGAACAGgtaaatctat ... tctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtcatcctagatatcttgacatagatgttctttttctttccttttctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAAGAATCTGTGGAATTCTTGCCTAAAGAAGAAACTGAGGCAAAGAGGAATA
tcttgac putative branch site (score: 3)
tagatgttctttttct CT-rich tract
tttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatctattcatgatttttaatctctggctctcggcccagtgatacctgaccgttgaaaaaagaagaagaagaaaactattacatttttcttgtgattgggtcatcctagatatcttgacatagatgttctttttctttccttttctttctcagATGGTCTCAAATTGCAGCTCAATTGCCAGGGAGGACCGACAATGAAATAAAGAATCTGTGGAATTCTTGCCTAAAGAAGAAACTGAGGCAAAGAGGAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA