Sequence
atgc intronic sequence ATGC exonic sequencegtattcagccattaacatgatccagaaaagtttatatatttgtttcatggtgccaagttggacaaaatttctgggtttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG
Basic information
species | Glycine max |
transcript | GLYMA11G06650.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 7
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 11
gtattcagccattaacatgatccagaaaagtttatatatttgtttcatggtgccaagttggacaaaattt-------ctgggttt-ttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG-
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gtaatctgaagaacactcccttctcattatgttgagcaattgaa-cgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtagGGTATCCAAATCTTAGACCAGAAGTGGAAGAAGGAATATGTCAAGTTTTAGCACACATGTGGTTGGAATCTGAGACTTATGCTGGCTCTAC-ATTAGTAGA
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 3'ss of exon 15
---------------------------------------------------------------gt-attcagccattaacatgatccagaaaagtttatatatttgtttcatggtgccaagttggacaa-aatttctgggtttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG
|| ||| | | || | | | | || | | || ||||| || ||| | || | ||| | || |||| |||| |||| || || || | || ||||||||||| |||||||| || |||||| |||||||||| ||||||||| | |||| | | ||| || |||
gtacttatccgttcagtgacaaatattgcgttgacaattgtttctattcaagccctctgaaatgtgattaatctatgttcttcaaatgttgcacttcctgttttccattcataatgagaagctagaaattaataaccaagtgtttggcagGCTATCGAAATCTGAGACAGGATGTTGAAGAAGGCATCTGCCAGGTGTTGGCTTATATGTGGTTGGAATCAGAGATACATTCAAGCTCTGGTAACAATGT
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------------------------------------gtattcagccattaacatgatccagaaaagtttatatatttgt-ttcatggtgccaagttggacaa-aatttctgggtttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG
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gtactttatctgttcagtgacaaatgttgcattgacaatagtttctatttaagttctctgaaatatgattaatccatgttcttcaaatattgcacttcctgtgtttccattcataatgagaagctagaaattaataaccaagtgtttggcagGATATCCAAATCTGAGTCAGGATGTTGAAGAAGGCATCTGCCAGGTGTTGGCTTATATGTGGTTGGATTCAGAGATATATTCAAGTGCTGGTAGTGATGTMapped 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|5509811|gb|AI856369.1|AI856369EST: GGATC-ATCCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG GTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGG
genomic: GGATCAAT-CCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAGgtattcagcc ... tttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGG
EST:
gi|14011271|gb|BG726202.1|BG726202EST: AGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG GTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGG
genomic: AGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAGgtattcagcc ... tttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatatatttgtttcatggtgccaagttggacaaaatttctgggtttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG
ttttt CT-rich tract
atatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcagccattaacatgatccagaaaagtttatatatttgtttcatggtgccaagttggacaaaatttctgggtttttgacagGTTATCCTAACCTCAGTCCAGAAGTTGAAGAAGGAATCTGCCAAGTTTTGGCTCATATGTGGTTAGAATCAGAGCTCTATTCTGGATTTGGGAATGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT