Sequence
atgc intronic sequence ATGC exonic sequence...tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccgtacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
Basic information
species | Glycine max |
transcript | GLYMA18G02850.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02850.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
-tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccg--tacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
| ||| | | | | | || || |||||| | | | | || || | | | | ||| ||| |||| || |||||| | || || || ||||| ||| ||||||| ||||||||||||||||||||||| ||||| ||| ||||||| | ||| |||||| || ||
gtaatttcctttcttgaattgttttggcaagtgcacttacttg-gagtagtaaccaaatttgtctcatttggtttcatcaatg-tgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
upper sequence: GLYMA18G02850.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G56050.2 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccgtacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
| || | ||| | || ||| | ||| | || | | ||| | | || | || |||| | || | |||||||| || || || || ||||| ||| ||||||| || |||||||||||||||||||| ||||| ||| ||||||||||| ||| ||||||||| |
gtaattgcctttctactccctgatacaaaaatgtgaagtggcattgttggttctagaagatgagatttaatagtcgc-tccactttttttcttttcg-atattaatgatgtatgatttgttactcagGTGTCCCCAAACTCAAAAGATCTGAGATTGAAGCTGCCTGTGAAGATTTTAGTAATGTCATTGGGTCTTGCCCCATTGGTACATTGTTCAAAGGGACGCT
upper sequence: GLYMA18G02850.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 3'ss of exon 6
-tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccgtacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
| |||| | | ||| || ||| || || |||| | | || | | || | | ||| ||||| || | |||||||||| |||||||| ||||| || ||||||||| |||| |||||||| || ||||||||||||||| |||| || || || || ||||||||||| || ||
gtaattgttccaaccccctcttctgttccctgtatattgctcatgt-tcgtattaatggttctgtgccttatgtatgcatgacctgatatctgcatttcagGTGTACCAAAGCTGAAGAGGTCGGAGCTTGAAACAGCTTGTGAAGACTTCAGTAATGTAATTGGTTCTTCGTCAATAGGGACCGTGTACAAAGGAACATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcatataagatttctgcctccgtacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
cattttc CT-rich tract
agaattttacatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccgtacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
tgattgc
- - - - -tattgca
- - - - - - - - ctccctt
- - - - - - - - - - - - - - agctatg
- - - - - - - - - - - - - - - - - - - - - - - -tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtat