Sequence
atgc intronic sequence ATGC exonic sequence...taaatgacaatctgtgattaatttaagcctactcttgttgtccctttttttttgtttccaatgcaatcaatttcaaattacaatctctacttcttgatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
Basic information
species | Glycine max |
transcript | GLYMA09G29810.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G062318_T01 (Zea mays), 3'ss of exon 8
--------------------taaatgacaatctgtgattaatttaa-gcctactct-tgttgtccctttttttt----tgtttccaatgcaatcaatttcaaattacaatctctacttcttgatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
|| || || | ||| || || ||| | ||| | || || | || | | | | | | || | | | ||| | ||| | | || |||| |||||||||||||||||||||||| | |||| | || || | || |||||||||| || | || | || ||
gtgagcaaccgaccagtcatctcttgctcctccgtcgtccattaaacgcgcactgtgcactgtgctgttggattatgacggttttgacgatgacgaccactgacgacggcgc--gcgacgtcgcagGGGCTGAACGCGAACCAGAACAGCATGCTGATCCTCCAGGAGAGCTGCGCGGACGCGTCCGGGGCGCTGGTGGTGTACTCGCCGATCGACATCCCGGCGG
upper sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 9
-----taaatgac------aatctgtgattaatttaagcctactcttgttgtccctttttttttgtttccaatgcaatcaattt-----caaattacaatctctacttcttga-----------tagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
| | ||| || | ||| || | || | || || ||| ||||| | |||||| | | ||||| ||||| | | | | || |||| |||||| | ||||| |||||||||||||| ||||| |||||||| | ||||| |||||||||||||| | ||||| ||||||||||| || ||||
gtaagtcagagaccctttgaacataggatcaaatcaaatat-ttccatttttccatttttccatttttccattttggttaatttggttgcaaatgggggtttttgactgctgggatcccatgggcagGCCTTCAACACCAGTCAGAACAACATGCTGATACTCCAAGAGAGCTGCATAGACTCATCAGGTTCCCTAGTCATCTACTGCCCAGTTGATCTACCTGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttgtttccaatgcaatcaatttcaaattacaatctctacttcttgatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
tctctacttctt CT-rich tract
aatcaatttcaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatgacaatctgtgattaatttaagcctactcttgttgtccctttttttttgtttccaatgcaatcaatttcaaattacaatctctacttcttgatagGCATTCAACTCAAGTCAAAACAACATGCTGATCCTCCAGGAGAGCTGTGTGGACTCCTCAGGTTCCCTAGTGGTGTACTGTCCAGTTGATCTGCCAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - -atctgtg
- - - - - - - - - - - - - - - - -cttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatctc