Sequence
atgc intronic sequence ATGC exonic sequence...cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttatcttagctttccaacatgtaatcgagtgtgtgtgcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC
Basic information
species | Glycine max |
transcript | GLYMA16G24200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G24200.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g03540.1 (Oryza sativa), 3'ss of exon 2
cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttat------cttagctttccaacatgtaatcgagtgtgtgt---gcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATG--AAC-
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----gtta---ttaccacaacgttttacatga-aatatttaatcttaatcttcgggagactcaaacaccacctaagtatctaactt-tatttgcatgtgtgtactacagGAAGAAGGATGGGTGGTGTGCCGAGCATTCAAGAAGAGGACGGCGTAT---CCGGCGAGGAGCATGGTGGAGACGTGGGACTACTCCTTGCACGAGCGCAACA
upper sequence: GLYMA16G24200.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G025642_T02 (Zea mays), 3'ss of exon 3
cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttatcttagctttccaac-atgtaatcgagtgtgtgtgc-----agGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC-
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------ggagatagataggcgataatggaggcgatactgtatattgcaatcctgcacgcctcattttaacaatctaactaatcagtttaatttccgagcgcttcagGAAGAAGGCTGGGTGGTGTGCCGAGCGTTCAAGAAGAGAACAGCGTACCCGGCAAGGATGGC-ATGGGGGGACCCCAGCTACGCCTACCGCGAGATCAGCG
upper sequence: GLYMA16G24200.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G66300.1 (Arabidopsis thaliana), 3'ss of exon 2
cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttatcttagctttccaacatgtaatcgagtgtgtgtgcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC---
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---------------------gtaattcggaatcttattcacttatagcgc-cacacattctgattgatctagctag------attaaatggtgaagcagGAAGAAGGATGGGTAGTGTGTAGAGCATTTAAGAAACGAACGACCAT---CCCAACAAAAAGGAGGCAACTTTGGGATCCGAACTGCTTATTCTACGACGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtccacaaaagtcttatcttagctttccaacatgtaatcgagtgtgtgtgcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC
ttatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctagtcaagtcaaacataatacatttcaagagaatagagaaaccaagtccacaaaagtcttatcttagctttccaacatgtaatcgagtgtgtgtgcagGAGGAAGGATGGGTGGTGTGCAGAGCATTCAAGAAAAGAACAACTAACGGCCAAACGAAGACTATTGAAGGATGGCATCGAAACTGCTTATACGATGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - -caaacat
- - - - - - - - - - - - - - - - - - -gagaaac
- - - - - - - - - - - - - - - - - - - - - - - - -ccacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaacat