Sequence
atgc intronic sequence ATGC exonic sequence...ttagtggctgatgctgcaactttatttgaaatgtgctgctgttctggtggttatgttactgtgaaaatgcatattcattgttttcatccatttcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
Basic information
species | Glycine max |
transcript | GLYMA16G26140.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g70100.1 (Oryza sativa), 3'ss of exon 1
---ttagtggctgatgctgcaactttatttgaaat--gtgctgctgttctggtggttatgttactgtgaaaatgcatattcattgttttcatccatttcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
|||| |||| | || |||| | |||| | | || | ||||| |||| | || | ||| | ||| ||| ||| |||||||||| ||||| ||||||||||| ||||||||||| ||| | | || || || || || || || | || | || ||| | |
gctggagtgatgatagctgtatgagatcttcaaatcacttctgcgaatttaagaagtaggaaggtgtgat--tgca-gcttatagcttttgtttcttttt--cagGTGTTTGTTCTTCAGGGGAGGTTTATATTTGGACCCGATGCAAGATCCTTGTACGTCACCATGTTCCTCATCATCGCGCCAGCGTCAATCTTTTGTTTGT
upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 1
ttagtggctgatgctgcaactttatttgaaatgtgctgctgttctggtggttatgttactgt-gaaaatgcatattca-------ttgttttcatccatt-tcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
| || || | || | ||| || ||| | || || | | |||| | | | | || ||||| || | |||||| ||| ||||||||||||||||| ||||||| ||||||| |||||| |||| ||||| |||| ||| ||||||| || ||| || ||||||| |||
---------gctggtgtattgttttcctggatgattcttgtttttggggaatactttgttctcgaaagtttctctaccgggctgtttattttcgcgttttattttgcagATATTCTTTCTTCAGGGAAGGTTTGTATTTGGGCCAGATGTTAGATCACTGGCGCTGACCATTTGTCTCATTGCTGTCCCTGTTACAATTTTCTGCATCT
upper sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 1
ttagtggctgatgctgcaactttatt-tg-aaatgtgctgctgttctggtggttatgttactgtgaaaatgcatattcattgttttcatccatttcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
|||| | | | | | || ||| || | || | || || | |||| | || | | ||| |||||| || ||||||| ||||||||||||||| ||| | ||||||||||| |||| ||||| ||| ||||| || || ||||||| |||||| ||| | |||||||||||||
ttagacatttaaggtttgaattcattatgtggaaatgataatgag-tgttttttatttccatgctcggg-acgtcaccatctgtttcattacttgtctgcagATATTTTTTCTTCAGGGGAGGCTTATATTTGGACCCGATGTTAGATCTCTGGGGCTGACCATATTCCTTATTGTTGCTCCTGTTACGGTTTTCTGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtggttatgttactgtgaaaatgcatattcattgttttcatccatttcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
ttttcatccatttcct CT-rich tract
atattcattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagtggctgatgctgcaactttatttgaaatgtgctgctgttctggtggttatgttactgtgaaaatgcatattcattgttttcatccatttcctgcagAAATTTTTTCTTCAGGGAAGGTTCATATTTGGACCAGATGCAAGATCATTGGCCCTGACGATTTTTCTTATTGCTGCTCCCGTTGCAGTTTTCTGTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - -ctgatgc
- - - - - - - tgcaact
- - - - - - - - - - - - - - - - - -ctgctgt
- - - - - - - - - - - - - - - - - - - - - - tggtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - gttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatat