Sequence
atgc intronic sequence ATGC exonic sequencegtattatataatatatcctatccactcatagtaacaaacactagttttctttggctcacacacacatatgtcttttaattgttgttataattaaaagacttttccttcattgttatatttgtttatgaatcgttcttcttgcaatacagGTGTTGAATGACCAAGCATTTGCCATTTGTGTTCTCATGGCATTGTTTACCACCTTCATCACCACCCCAATAGTGATGGCTGTATATAAACCAGCTCGCA
Basic information
species | Glycine max |
transcript | GLYMA13G17670.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G17670.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G17630.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattatataatatatcctatccactcatagtaacaaacactagttttctttggctcacacacacatatgtcttttaattgttgttataattaaaagacttttccttcattgttatatttgtttat--gaatcgttcttcttgcaatacagGTGTTGAATGACCAAGCATTTGCCATTTGTGTTCTCATGGCATTGTTTACCACCTTCATCACCACCCCAATAGTGATGGCTGTATATAAACCAGCTCGCA
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---------------------------------------------------------------gtatagattcttgaaa----gccataat---aagacttataaaacatttaaaagccgagttatctaaataacgatttttgtga-gcagGTGCTGAATGATCAAGCATTTGCGATCTTAGTCCTAATGGCATTGTTCACAACCTTCATCACAACTCCAATTGTGATGCTTATTTACAAGCCTGCAAGAA
upper sequence: GLYMA13G17670.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g01150.t01 (Vitis vinifera), 3'ss of exon 2
gtattatataatatatcctatccactcatagtaacaaacactagttttctttggctcacacacacatatgtcttttaattgttgttataattaaaagacttttccttcattgttatatttgtttatgaatcgttcttcttgcaatacagGTGTTGAATGACCAAGCATTTGCCATTTGTGTTCTCATGGCATTGTTTACCACCTTCATCACCACCCCAATAGTGATGGCTGTATATAAACCAGCTCGCA
||| || | |||| | | || | | ||| ||| | | || | || | | ||| | | |||||| || | ||| ||||| ||||||| || | ||||| || | ||||| ||||| ||||| ||||||||||||||||||||||| |||| || | ||||| ||||| | |
-----------------------------------gtacataagctc------actcattctggtacatagttgatgatttttggtctgggtaggtggctgaccatc--ttgct-tccttgttt---gattatat--------atatagGTGCTGAATGATCAGACTTTTGCTATCTTAGTTCTTATGGCGTTGTTCACCACCTTCATCACCACCCCAATTGTGACCGCCTTGTATAAGCCAGCCAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagacttttccttcattgttatatttgtttatgaatcgttcttcttgcaatacagGTGTTGAATGACCAAGCATTTGCCATTTGTGTTCTCATGGCATTGTTTACCACCTTCATCACCACCCCAATAGTGATGGCTGTATATAAACCAGCTCGCA
tcgttcttctt CT-rich tract
attgttatatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatataatatatcctatccactcatagtaacaaacactagttttctttggctcacacacacatatgtcttttaattgttgttataattaaaagacttttccttcattgttatatttgtttatgaatcgttcttcttgcaatacagGTGTTGAATGACCAAGCATTTGCCATTTGTGTTCTCATGGCATTGTTTACCACCTTCATCACCACCCCAATAGTGATGGCTGTATATAAACCAGCTCGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC