Sequence
atgc intronic sequence ATGC exonic sequencegttcatatttgttccttgtttcctagttattttctgtttttttgttctattttattggccgtagtttcttataatgtgttcttctgataattgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
Basic information
species | Glycine max |
transcript | GLYMA12G31980.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 3'ss of exon 4
gttcatatttgttccttgtttcctagttattttctgtttttttgttctattttattggccgtagtttcttataatgtgttcttctgataattgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
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-------gttgtacattcttttgcatggag-----aattttttttcccacagta--aaacatgttacctgatattgt----ttctg-tgtttgc--gacagGTGAAAAAAGAAGGAAGCTTGAGGAAGAAAAGGGAATTATCATCCGATTCGTCATTGGTCATAG
upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 4
gttcatatttgttccttgtttcctagttattttctgtttttttgttctattttattggccgtagtttcttataatgtgttcttctgataat-tgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
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------gttctaatatcaccttctag--gttctttatcttcaagattgctgatatcgat-atgttacttgatggatgtttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 4
gttcatatttgttcctt-gtttcctagttatt---ttctgtttttttgttc-tattttatt--ggcc---------gtagtttcttataatgtgttcttctg--ataattgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
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gttcatggatgtttctttgctttctattcctggagttcttttttcttattcatatcttattttagcttcttattggatgatgtcttacgattgtttcttctggaacacatggaaaatagGTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattttattggccgtagtttcttataatgtgttcttctgataattgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
tgataattgataaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatatttgttccttgtttcctagttattttctgtttttttgttctattttattggccgtagtttcttataatgtgttcttctgataattgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA