Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaatgcatatattacttccattctttccattgttacgtgtctttatgttctataattaaaaggctattttaatggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
Basic information
species | Glycine max |
transcript | GLYMA10G37400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G37400.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g45050.2 (Oryza sativa), 3'ss of exon 3
gtaagaaatgcatatattacttccattctttccattgttacgtgtctttatgttctataatta-aaaggctattttaat-ggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
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---------------------------------------gtaattattttggtacaacaactgtacaagttaccacatttagcactgttaccaactacagttttctt----tcttgcagTCTTTATGGTACTGTACACCGTGCCTGTTCTGTATGAGAAGTATGAGGACCAAATCGATGCTTTTGGAGAGAAGGCCATGATCGAACTGAAGAAGTACTA
upper sequence: GLYMA10G37400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G031308_T02 (Zea mays), 3'ss of exon 4
gtaagaaatgcatatattacttccattctttccattgttacgtgtctttatgttctataattaaaaggctattttaatggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
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-------------gtaatgaccgcaattcatctgctactaactttttctcttggtgttgattcaagt----tttgaatgaagtttta-------tgcctccattt---------cagTCTTTGTGGCACTGTACACTGTACCAGTTCTGTATGAGAAATATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTATGACTGAACTGAAGAAGTATTA
upper sequence: GLYMA10G37400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G002786_T01 (Zea mays), 3'ss of exon 4
gtaagaaatgcatatattacttccattctttccattgttacgtgtctttatgttctataattaaaaggctattttaatggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
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-------------gtaataactgtgattcatctgttgctaacttttctcttggtgt-tgattcaagt----tttgaatgaaatttta-------tgcctccatt---------gcagTCTTTGTGGCACTGTACACTATACCTGTTCTGTATGAGAAATATGAGGACAAGGTTGATGCTTTTGGTGAGAAGGCTATGATCGAACTGAAGAAGTATTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaggctattttaatggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
tcctaac putative branch site (score: 1)
tattttaatggtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaatgcatatattacttccattctttccattgttacgtgtctttatgttctataattaaaaggctattttaatggtattttcctaacattgaatccatttggggtgatacagTTTTTGTGTCACTGTTCACGTTGCCACTGCTGTATGAGAAATATGAAGACCAAGTTGATGCATTAGGAGAGAAGGCAATGATTGAAATCAAAAAGCAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA