Sequence
atgc intronic sequence ATGC exonic sequencegcaagtatataccgtgtactttttatgattgtgctagctacctttttccttaaataatgttgattctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
Basic information
species | Glycine max |
transcript | GLYMA18G06770.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 11
------------------------gcaagtatat-accgtgtactttttatgattgtgctagctacctttttccttaaataatgttgattctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
| ||||| || | | ||||| | | ||| || || | |||| | | | | || | ||||| ||||| | || | ||||| |||||||||||||||||||| ||||| |||||| | || || ||| || |
gtctgtaattgccaaattatattaaatattatatcacaatacattttttgtcaagaatatag-tatagttatatgtaaacattttgaaaccttt---tcagGTCTATGAACCGGTGGAAGAAGGTTCTTACATAAAAATGATTGACATGGTTAGTGGGAAGGGGGGCCAACTAAAG
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------gcaagtatataccgtgtactttttatgattgtgctagctacctttt------------------tccttaaat--aatgttga---------ttctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
|| | | | ||||||||| | | || || ||| | ||||| |||||||| || | | ||||||||||||| | || | ||||| || ||||| |||||||||||||||||||||||| | |||||||| ||||||
gtcggtacacaaacctgcactttctaaacgtgtcctaattactttttaaagcttagttaacttttctttgatgcaccatcgtcttggtacttaagacaaatgttgagcttactctttttttttgccagGTTTATGAGCCTGTAGAAGAAGGTTCGTACATCAAAATGATTGATATGGTCAGTGGGAACGGTGGACAGATACAA
upper sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 13
---------------gcaagtat-ataccgtgtactttttatgattgtgcta-gctacctttttccttaaataat--gttgattctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
| ||| || ||||| | || |||| | | | |||| |||||| ||| || |||||||||||||| |||| | ||||| |||||||| ||||||||||||||||| |||| || | |||||| |||||
gtagtttcctggagcttacttatgatgattggtactactcatatttgtattttgtgaaagatttctgaaaataaacaattgtgctcctgtaccagGTTTATGAGCCAGTGGAAGAAGGCTCTTACATCAAAATGATTGATATGGTTGGTGGCCAAGATGGACAGATACAGMapped 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|17964344|gb|BM271080.1|BM271080EST: TTGAGGCTGGATTGCAAGACTTTAAAAATCGTCTAGAAAATTATGAGAAG GTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTC
genomic: TTGAGGCTGGATTGCAAGACTTTAAAAATCGTCTAGAAAATTATGAGAAGgcaagtatat ... tatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatgattgtgctagctacctttttccttaaataatgttgattctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
tgttgat putative branch site (score: 4)
tttttccttaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagtatataccgtgtactttttatgattgtgctagctacctttttccttaaataatgttgattctatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA