Sequence
atgc intronic sequence ATGC exonic sequencegtatgggaagattgagggagtgattctttatgtactctttgatttgactgatgtcttcaaaggggttcttacatgaagatgtctttcttttaaccagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
Basic information
species | Glycine max |
transcript | GLYMA15G04200.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04200.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G59430.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgggaagattgagggagtgattctttatgtactctttgatttgactgatgtcttcaaa--ggggttcttacatgaagatgtctttcttttaaccagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
| | ||||| | | | | | | | | | | | | || | | || |||||| |||| | | | ||||||| || ||||||| || ||||| |||||||||||||| || ||||||||||||||||| || || || || |||||
--------gtaacaatggagtctcatctgaattctttgtcggtgttatttacttacaaaagcggagaagctaacatgagaatgtttattt------cagTGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAG
upper sequence: GLYMA15G04200.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G46590.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgggaagattgagggagt---gattctttatgtactctttgatttgactgatgtcttcaaaggggttcttacatgaagatgtctttcttttaaccagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
| | || | ||||| | ||| || || ||||| || || || ||| | | || | | | | || || || ||||||||| ||||||| || || || |||||||||||||| | ||||||||||||||||| || || || ||| |||||
------gtaatttaatggagtctcaagtctcaatctatcctttg--ttcgcttattgtttcgttgaaatatttttgttttgttttgttactctt---tagTGAAGCTGCGGATCAAGTCTTTTAGGGTGCCTGAGCTTTTCGTAGAGATTCCAGAAACTGCTACTGTTGGCTCCTTGAAG
upper sequence: GLYMA15G04200.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g04940.t01 (Vitis vinifera), 3'ss of exon 5
gtatgggaagatt-gagggagtgattctttatgtactcttt-gatttgactgatgtcttcaaa--ggggttcttacatgaagatgtctttcttttaac-cagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
||||| || || || |||||||||||| ||||||||||| || |||| || ||||| | | ||||||| ||||||||| |||| ||| || ||||||||||||||||||| || ||||| ||||| ||||| ||||| |||||||||||||||||||| || || ||||| |||
gtatgagagcctttgatggagtgattctt-atgtactcttttgacttgattggtgtctgatattcgaagttcttatgtgaagatgtatttccttttactcagTGAAGCTTAGGATCAAGTCTTTCAGGGTGCCAGAGCTCTTTATAGAGATTCCAGAAACTGCAACTGTTGGTTCCCTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgactgatgtcttcaaaggggttcttacatgaagatgtctttcttttaaccagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
ttcttac putative branch site (score: 2)
tctttcttttaacc putative PPT
tttcttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgggaagattgagggagtgattctttatgtactctttgatttgactgatgtcttcaaaggggttcttacatgaagatgtctttcttttaaccagTGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG