Sequence
atgc intronic sequence ATGC exonic sequence...ctgcagaaatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 22 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 22
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 24
ctgcagaaatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagcta--atttatt--tgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
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-tatagttttggattttttttgt---tagtttatttgtgtagattagttctctttgacgtttttaatattttcatcatagcttatctaacattgattgttgtagCTTCTTGCTGATGGCGTAATTCCAAACGAGTATGGGATCAACCCAAAGCAAAAACTAAAAATTGGCTCAAAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 22
lower sequence: GRMZM2G022997_T01 (Zea mays), 3'ss of exon 4
-ctgcagaaatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
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caaatttgagctaatgtgttatagattccatgttctcttggacctttctttgtagtgtttctttaatta-tttgttatctgacacaccgatattcttctagATACTCGCTGATGGTGTTATTCCAAATGAGTATGGGATCAACCCAAAGCAAAAACTGAAAATCGGCTCAAAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 22
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 25
ctgcagaaatgaaacccttatatgtactacttttc-tgtgtatattgactgatgagttcaatct-cattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
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-tccagattt-aaactgttccattttttattgtacatctccgttttgcatttcgatcgtggactgtgttgattagggccacttatgtgttatgtggttgcagTTGCTTGCAGATGGTGTAATCCCAAATGAGTATGGGATCAATCCACAGCAAAAGCTCAAAATCGGTTCAAAG
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 22
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 24
-ctgcaga--aatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
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aatgcatatcaatcatcaaattacatctagttaccctttttgtaggctaaaggttgtgaccatttttgtaggctaag-ggttgtccattttgtt--gttgcagTTACTTGCAGATGGTGTCATCCCAAATGAGTACGGCATTAACCCAAAGCAGAAGTTGAAGATTGGATCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
tttattt CT-rich tract
taatttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcagaaatgaaacccttatatgtactacttttctgtgtatattgactgatgagttcaatctcattgctttcctaattgctcagctaatttatttgcagATGCTTGCTGATGGTGTAATTCCAAATGAATATGGAATTAATCCAAAGCAGAAGCTGAAGATTGGCTCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
ctgcaga
- - - - -tgaaacc
- - - - - - - - - - tatgtac
- - - - - - - - - - - - - - - - ttctgtg
- - - - - - - - - - - - - - - - - - - - - - - actgatg