Sequence
atgc intronic sequence ATGC exonic sequencegtaattggcctttttggttaattgaaatcaatcctgtaagagaacttgtttaggtatattaatatgggtattttgatggacagGTGAGGGCAGCGCTTCCTGCTCTAGAACGATTGGTTTTTTCCAATGATGAAGAAGTCTTGACAGACGCATGTTGGGCACTATCATATCTTTCCGATGGAA
Basic information
species | Glycine max |
transcript | GLYMA09G04430.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------------gtaattggcctttttggttaattgaaatcaatcctgtaagagaacttgtttaggtatattaatatgggtattttgatggacagGTGAGGGCAGCGCTTCCTGCTCTAGAACGATTGGTTTTTTCCAATGATGAAGAAGTCTTGACAGACGCATGTTGGGCACTATCATATCTTTCCGATGGAA
| | | || | || | || | | ||| || | | || | ||| | ||||||| | | || ||||| || || || || | ||| ||||| ||||||||||| ||||||| |||||||||||||| |||||||| || ||||| |
gttgttgctttgatcattgcattgtttaggattcaagcattgcatcccgtctctccctccttccctaaattttactttgtggttgtctgtagcagtttttaaacct-----tttgaaattgcagGTGAAGCCGGCACTTCCAGCCCTGGAGCGTCTTGTTCATTCCAGCGATGAAGAAGTTCTGACAGATGCATGTTGGGCACTCTCATATCTCTCTGATGGTA
upper sequence: GLYMA09G04430.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S230_50V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------gtaattggcctttttggttaat-tgaaatcaatcctgtaagag--aacttgttta----ggtatattaatatggg------------tattttgatgg---------acagGTGAGGGCAGCGCTTCCTGCTCTAGAACGATTGGTTTTTTCCAATGATGAAGAAGTCTTGACAGACGCATGTTGGGCACTATCATATCTTTCCGATGGAA
| ||| | | | || || ||| | ||| ||| | | | |||||| ||| | ||| |||||| || ||| | | | || || || ||| | || ||| | || ||| ||||||||||||||| | ||||| ||||| ||||| ||||| ||| | ||||||||||
gtttgtacgcctcgtgatttctagatggtctcatatcaactttctccaattttttgattatctatgcttattcatctgagacgtatcttgtgaaggctgatttgtttcttctagtacgctgccatgaagtcgatgattcatatttttattttaaattcttgcagTCCAAGCCTGCACTCCCAGCTTTGGAGCGACTCATTCATTCAAATGATGAAGAAGTCCTTACAGATGCATGCTGGGCCCTATCTTATTTGTCCGATGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatcctgtaagagaacttgtttaggtatattaatatgggtattttgatggacagGTGAGGGCAGCGCTTCCTGCTCTAGAACGATTGGTTTTTTCCAATGATGAAGAAGTCTTGACAGACGCATGTTGGGCACTATCATATCTTTCCGATGGAA
tttaggtatattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattggcctttttggttaattgaaatcaatcctgtaagagaacttgtttaggtatattaatatgggtattttgatggacagGTGAGGGCAGCGCTTCCTGCTCTAGAACGATTGGTTTTTTCCAATGATGAAGAAGTCTTGACAGACGCATGTTGGGCACTATCATATCTTTCCGATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA